diff --git a/Cargo.lock b/Cargo.lock
index 056af67..26c9072 100644
--- a/Cargo.lock
+++ b/Cargo.lock
@@ -776,6 +776,7 @@ dependencies = [
  "dotenvy",
  "futures",
  "gitea-client",
+ "minijinja",
  "nucleo-matcher",
  "octocrab",
  "pretty_assertions",
@@ -784,6 +785,7 @@ dependencies = [
  "ratatui",
  "regex",
  "serde",
+ "shell-words",
  "termwiz 0.23.3",
  "tokio",
  "toml",
@@ -1345,6 +1347,15 @@ dependencies = [
  "unicase",
 ]
 
+[[package]]
+name = "minijinja"
+version = "2.16.0"
+source = "registry+https://github.com/rust-lang/crates.io-index"
+checksum = "5c54f3bcc034dd74496b5ca929fd0b710186672d5ff0b0f255a9ceb259042ece"
+dependencies = [
+ "serde",
+]
+
 [[package]]
 name = "minimal-lexical"
 version = "0.2.1"
@@ -2289,6 +2300,12 @@ dependencies = [
  "lazy_static",
 ]
 
+[[package]]
+name = "shell-words"
+version = "1.1.1"
+source = "registry+https://github.com/rust-lang/crates.io-index"
+checksum = "dc6fe69c597f9c37bfeeeeeb33da3530379845f10be461a66d16d03eca2ded77"
+
 [[package]]
 name = "shlex"
 version = "1.3.0"
diff --git a/README.md b/README.md
index 5ba8ab4..807948c 100644
--- a/README.md
+++ b/README.md
@@ -37,4 +37,76 @@ With gitnow
 
 1. `git now`
 2. Enter parts of the project name and press enter
-3. Your project is automatically downloaded if it doesn't exist in an opinionated path dir, and move you there. 
+3. Your project is automatically downloaded if it doesn't exist in an opinionated path dir, and move you there.
+
+## Configuration
+
+Configuration lives at `~/.config/gitnow/gitnow.toml` (override with `$GITNOW_CONFIG`).
+
+### Custom clone command
+
+By default gitnow uses `git clone`. You can override this with any command using a [minijinja](https://docs.rs/minijinja) template:
+
+```toml
+[settings]
+# Use jj (Jujutsu) instead of git
+clone_command = "jj git clone {{ ssh_url }} {{ path }}"
+```
+
+Available template variables: `ssh_url`, `path`.
+
+### Worktrees
+
+gitnow supports git worktrees (or jj workspaces) via the `worktree` subcommand. This uses bare repositories so each branch gets its own directory as a sibling:
+
+```
+~/git/github.com/owner/repo/
+├── .bare/          # bare clone (git clone --bare)
+├── main/           # worktree for main branch
+├── feature-login/  # worktree for feature/login branch
+└── fix-typo/       # worktree for fix/typo branch
+```
+
+Usage:
+
+```bash
+# Interactive: pick repo, then pick branch
+gitnow worktree
+
+# Pre-filter repo
+gitnow worktree myproject
+
+# Specify branch directly
+gitnow worktree myproject -b feature/login
+
+# Print worktree path instead of entering a shell
+gitnow worktree myproject -b main --no-shell
+```
+
+All worktree commands are configurable via minijinja templates:
+
+```toml
+[settings.worktree]
+# Default: "git clone --bare {{ ssh_url }} {{ bare_path }}"
+clone_command = "git clone --bare {{ ssh_url }} {{ bare_path }}"
+
+# Default: "git -C {{ bare_path }} worktree add {{ worktree_path }} {{ branch }}"
+add_command = "git -C {{ bare_path }} worktree add {{ worktree_path }} {{ branch }}"
+
+# Default: "git -C {{ bare_path }} branch --format=%(refname:short)"
+list_branches_command = "git -C {{ bare_path }} branch --format=%(refname:short)"
+```
+
+For jj, you might use:
+
+```toml
+[settings]
+clone_command = "jj git clone {{ ssh_url }} {{ path }}"
+
+[settings.worktree]
+clone_command = "jj git clone {{ ssh_url }} {{ bare_path }}"
+add_command = "jj -R {{ bare_path }} workspace add --name {{ branch }} {{ worktree_path }}"
+list_branches_command = "jj -R {{ bare_path }} bookmark list -T 'name ++ \"\\n\"'"
+```
+
+Available template variables for worktree commands: `bare_path`, `worktree_path`, `branch`, `ssh_url`.
diff --git a/crates/gitnow/Cargo.toml b/crates/gitnow/Cargo.toml
index 2ee872e..622cd5c 100644
--- a/crates/gitnow/Cargo.toml
+++ b/crates/gitnow/Cargo.toml
@@ -37,6 +37,8 @@ crossterm = { version = "0.28.0", features = ["event-stream"] }
 futures = "0.3.30"
 termwiz = "0.23.0"
 regex = "1.11.1"
+minijinja = "2"
+shell-words = "1"
 
 [dev-dependencies]
 pretty_assertions = "1.4.0"
diff --git a/crates/gitnow/src/commands.rs b/crates/gitnow/src/commands.rs
index 8449fe2..9a5de09 100644
--- a/crates/gitnow/src/commands.rs
+++ b/crates/gitnow/src/commands.rs
@@ -1,6 +1,7 @@
 pub mod root;
 pub mod shell;
 pub mod update;
+pub mod worktree;
 pub mod clone {
 
     use std::sync::Arc;
diff --git a/crates/gitnow/src/commands/worktree.rs b/crates/gitnow/src/commands/worktree.rs
new file mode 100644
index 0000000..254aaaa
--- /dev/null
+++ b/crates/gitnow/src/commands/worktree.rs
@@ -0,0 +1,166 @@
+use std::io::IsTerminal;
+
+use crate::{
+    app::App,
+    cache::CacheApp,
+    components::inline_command::InlineCommand,
+    fuzzy_matcher::FuzzyMatcherApp,
+    interactive::{InteractiveApp, StringItem},
+    projects_list::ProjectsListApp,
+    shell::ShellApp,
+    worktree::{sanitize_branch_name, WorktreeApp},
+};
+
+use super::root::RepositoryMatcher;
+
+#[derive(clap::Parser)]
+pub struct WorktreeCommand {
+    /// Optional search string to pre-filter repositories
+    #[arg()]
+    search: Option<String>,
+
+    /// Branch to check out (skips interactive branch selection)
+    #[arg(long = "branch", short = 'b')]
+    branch: Option<String>,
+
+    /// Skip cache
+    #[arg(long = "no-cache", default_value = "false")]
+    no_cache: bool,
+
+    /// Skip spawning a shell in the worktree
+    #[arg(long = "no-shell", default_value = "false")]
+    no_shell: bool,
+}
+
+impl WorktreeCommand {
+    pub async fn execute(&mut self, app: &'static App) -> anyhow::Result<()> {
+        // Step 1: Load repositories
+        let repositories = if !self.no_cache {
+            match app.cache().get().await? {
+                Some(repos) => repos,
+                None => {
+                    tracing::info!("finding repositories...");
+                    let repositories = app.projects_list().get_projects().await?;
+                    app.cache().update(&repositories).await?;
+                    repositories
+                }
+            }
+        } else {
+            app.projects_list().get_projects().await?
+        };
+
+        // Step 2: Select repository
+        let repo = match &self.search {
+            Some(needle) => {
+                let matched_repos = app
+                    .fuzzy_matcher()
+                    .match_repositories(needle, &repositories);
+
+                matched_repos
+                    .first()
+                    .ok_or(anyhow::anyhow!("failed to find repository"))?
+                    .to_owned()
+            }
+            None => app
+                .interactive()
+                .interactive_search(&repositories)?
+                .ok_or(anyhow::anyhow!("failed to find a repository"))?,
+        };
+
+        tracing::debug!("selected repo: {}", repo.to_rel_path().display());
+
+        let wt = app.worktree();
+        let (_project_path, bare_path) = wt.paths(&repo);
+
+        // Step 3: Ensure bare clone exists
+        if !bare_path.exists() {
+            if std::io::stdout().is_terminal() && !self.no_shell {
+                let mut wrap_cmd =
+                    InlineCommand::new(format!("cloning: {}", repo.to_rel_path().display()));
+                let wt = app.worktree();
+                let repo_clone = repo.clone();
+                let bare_path_clone = bare_path.clone();
+                wrap_cmd
+                    .execute(move || async move {
+                        wt.ensure_bare_clone(&repo_clone, &bare_path_clone).await?;
+                        Ok(())
+                    })
+                    .await?;
+            } else {
+                eprintln!("bare-cloning repository...");
+                wt.ensure_bare_clone(&repo, &bare_path).await?;
+            }
+        }
+
+        // Step 4: List branches
+        let branches = app.worktree().list_branches(&bare_path).await?;
+
+        if branches.is_empty() {
+            anyhow::bail!("no branches found for {}", repo.to_rel_path().display());
+        }
+
+        // Step 5: Select branch
+        let branch = match &self.branch {
+            Some(b) => {
+                if !branches.contains(b) {
+                    anyhow::bail!(
+                        "branch '{}' not found. Available branches: {}",
+                        b,
+                        branches.join(", ")
+                    );
+                }
+                b.clone()
+            }
+            None => {
+                let items: Vec<StringItem> =
+                    branches.into_iter().map(StringItem).collect();
+
+                let selected = app
+                    .interactive()
+                    .interactive_search_items(&items)?
+                    .ok_or(anyhow::anyhow!("no branch selected"))?;
+
+                selected.0
+            }
+        };
+
+        // Step 6: Create worktree at <project_path>/<sanitized_branch>/
+        let sanitized = sanitize_branch_name(&branch);
+        let (project_path, _) = app.worktree().paths(&repo);
+        let worktree_path = project_path.join(&sanitized);
+
+        if !worktree_path.exists() {
+            if std::io::stdout().is_terminal() && !self.no_shell {
+                let mut wrap_cmd =
+                    InlineCommand::new(format!("creating worktree: {}", &branch));
+                let wt = app.worktree();
+                let bare_path = bare_path.clone();
+                let worktree_path = worktree_path.clone();
+                let branch = branch.clone();
+                wrap_cmd
+                    .execute(move || async move {
+                        wt.add_worktree(&bare_path, &worktree_path, &branch)
+                            .await?;
+                        Ok(())
+                    })
+                    .await?;
+            } else {
+                eprintln!("creating worktree for branch '{}'...", &branch);
+                app.worktree()
+                    .add_worktree(&bare_path, &worktree_path, &branch)
+                    .await?;
+            }
+        } else {
+            tracing::info!("worktree already exists at {}", worktree_path.display());
+        }
+
+        // Step 7: Enter shell or print path
+        if !self.no_shell {
+            app.shell().spawn_shell_at(&worktree_path).await?;
+        } else {
+            println!("{}", worktree_path.display());
+        }
+
+        Ok(())
+    }
+}
diff --git a/crates/gitnow/src/config.rs b/crates/gitnow/src/config.rs
index 5fd29d0..74d95e2 100644
--- a/crates/gitnow/src/config.rs
+++ b/crates/gitnow/src/config.rs
@@ -22,6 +22,29 @@ pub struct Settings {
 
     pub post_clone_command: Option<PostCloneCommand>,
     pub post_update_command: Option<PostUpdateCommand>,
+
+    /// Minijinja template for the clone command.
+    /// Default: "git clone {{ ssh_url }} {{ path }}"
+    pub clone_command: Option<String>,
+
+    /// Worktree configuration.
+    #[serde(default)]
+    pub worktree: Option<WorktreeSettings>,
+}
+
+#[derive(Debug, Serialize, Deserialize, PartialEq, Clone)]
+pub struct WorktreeSettings {
+    /// Template for bare-cloning a repository.
+    /// Default: "git clone --bare {{ ssh_url }} {{ bare_path }}"
+    pub clone_command: Option<String>,
+
+    /// Template for adding a worktree.
+    /// Default: "git -C {{ bare_path }} worktree add {{ worktree_path }} {{ branch }}"
+    pub add_command: Option<String>,
+
+    /// Template for listing branches.
+    /// Default: "git -C {{ bare_path }} branch -r --format=%(refname:short)"
+    pub list_branches_command: Option<String>,
 }
 
 #[derive(Debug, Serialize, Deserialize, PartialEq, Clone)]
@@ -398,7 +421,9 @@ mod test {
                         directory: PathBuf::from("git").into()
                     },
                     post_update_command: None,
-                    post_clone_command: None
+                    post_clone_command: None,
+                    clone_command: None,
+                    worktree: None,
                 }
             },
             config
@@ -425,7 +450,9 @@ mod test {
                     cache: Cache::default(),
                     projects: Projects::default(),
                     post_update_command: None,
-                    post_clone_command: None
+                    post_clone_command: None,
+                    clone_command: None,
+                    worktree: None,
                 }
             },
             config
@@ -433,4 +460,54 @@ mod test {
 
         Ok(())
     }
+
+    #[test]
+    fn test_can_parse_config_with_clone_command() -> anyhow::Result<()> {
+        let content = r#"
+              [settings]
+              projects = { directory = "git" }
+              clone_command = "jj git clone {{ ssh_url }} {{ path }}"
+            "#;
+
+        let config = Config::from_string(content)?;
+
+        assert_eq!(
+            config.settings.clone_command,
+            Some("jj git clone {{ ssh_url }} {{ path }}".to_string())
+        );
+
+        Ok(())
+    }
+
+    #[test]
+    fn test_can_parse_config_with_worktree() -> anyhow::Result<()> {
+        let content = r#"
+              [settings]
+              projects = { directory = "git" }
+
+              [settings.worktree]
+              clone_command = "jj git clone {{ ssh_url }} {{ bare_path }}"
+              add_command = "jj workspace add --name {{ branch }} {{ worktree_path }}"
+              list_branches_command = "jj -R {{ bare_path }} branch list"
+            "#;
+
+        let config = Config::from_string(content)?;
+
+        assert_eq!(
+            config.settings.worktree,
+            Some(WorktreeSettings {
+                clone_command: Some(
+                    "jj git clone {{ ssh_url }} {{ bare_path }}".to_string()
+                ),
+                add_command: Some(
+                    "jj workspace add --name {{ branch }} {{ worktree_path }}".to_string()
+                ),
+                list_branches_command: Some(
+                    "jj -R {{ bare_path }} branch list".to_string()
+                ),
+            })
+        );
+
+        Ok(())
+    }
 }
diff --git a/crates/gitnow/src/git_clone.rs b/crates/gitnow/src/git_clone.rs
index b218a8a..0e9f539 100644
--- a/crates/gitnow/src/git_clone.rs
+++ b/crates/gitnow/src/git_clone.rs
@@ -1,4 +1,6 @@
-use crate::{app::App, git_provider::Repository};
+use std::collections::HashMap;
+
+use crate::{app::App, git_provider::Repository, template_command};
 
 #[derive(Debug, Clone)]
 pub struct GitClone {
@@ -35,20 +37,27 @@ impl GitClone {
             return Ok(());
         }
 
+        let template = self
+            .app
+            .config
+            .settings
+            .clone_command
+            .as_deref()
+            .unwrap_or(template_command::DEFAULT_CLONE_COMMAND);
+
         tracing::info!(
             "cloning: {} into {}",
             repository.ssh_url.as_str(),
             &project_path.display().to_string(),
         );
 
-        let mut cmd = tokio::process::Command::new("git");
-        cmd.args([
-            "clone",
-            repository.ssh_url.as_str(),
-            &project_path.display().to_string(),
+        let path_str = project_path.display().to_string();
+        let context = HashMap::from([
+            ("ssh_url", repository.ssh_url.as_str()),
+            ("path", path_str.as_str()),
         ]);
 
-        let output = cmd.output().await?;
+        let output = template_command::render_and_execute(template, context).await?;
         match output.status.success() {
             true => tracing::debug!(
                 "cloned {} into {}",
diff --git a/crates/gitnow/src/interactive.rs b/crates/gitnow/src/interactive.rs
index c47b7db..b08e0d6 100644
--- a/crates/gitnow/src/interactive.rs
+++ b/crates/gitnow/src/interactive.rs
@@ -3,6 +3,25 @@ use ratatui::{prelude::*, Terminal};
 
 use crate::git_provider::Repository;
 
+pub trait Searchable: Clone {
+    fn display_label(&self) -> String;
+}
+
+impl Searchable for Repository {
+    fn display_label(&self) -> String {
+        self.to_rel_path().display().to_string()
+    }
+}
+
+#[derive(Clone)]
+pub struct StringItem(pub String);
+
+impl Searchable for StringItem {
+    fn display_label(&self) -> String {
+        self.0.clone()
+    }
+}
+
 pub struct Interactive {
     app: &'static crate::app::App,
 }
@@ -16,12 +35,17 @@ impl Interactive {
         &mut self,
         repositories: &[Repository],
     ) -> anyhow::Result<Option<Repository>> {
+        self.interactive_search_items(repositories)
+    }
+
+    pub fn interactive_search_items<T: Searchable>(
+        &mut self,
+        items: &[T],
+    ) -> anyhow::Result<Option<T>> {
         let backend = TermwizBackend::new().map_err(|e| anyhow::anyhow!(e.to_string()))?;
         let terminal = Terminal::new(backend)?;
 
-        let app_result = App::new(self.app, repositories).run(terminal);
-
-        app_result
+        App::new(self.app, items).run(terminal)
     }
 }
 
@@ -47,36 +71,47 @@ mod app {
         Frame, Terminal,
     };
 
-    use crate::{
-        commands::root::RepositoryMatcher, fuzzy_matcher::FuzzyMatcherApp, git_provider::Repository,
-    };
+    use crate::fuzzy_matcher::FuzzyMatcherApp;
 
-    pub struct App<'a> {
+    use super::Searchable;
+
+    pub struct App<'a, T: Searchable> {
         app: &'static crate::app::App,
-        repositories: &'a [Repository],
+        items: &'a [T],
         current_search: String,
-        matched_repos: Vec<Repository>,
+        matched_items: Vec<T>,
         list: ListState,
     }
 
-    impl<'a> App<'a> {
-        pub fn new(app: &'static crate::app::App, repositories: &'a [Repository]) -> Self {
+    impl<'a, T: Searchable> App<'a, T> {
+        pub fn new(app: &'static crate::app::App, items: &'a [T]) -> Self {
             Self {
                 app,
-                repositories,
+                items,
                 current_search: String::default(),
-                matched_repos: Vec::default(),
+                matched_items: Vec::default(),
                 list: ListState::default(),
             }
         }
 
-        fn update_matched_repos(&mut self) {
-            let res = self
+        fn update_matched_items(&mut self) {
+            let labels: Vec<String> = self.items.iter().map(|i| i.display_label()).collect();
+            let label_refs: Vec<&str> = labels.iter().map(|s| s.as_str()).collect();
+
+            let matched_keys = self
                 .app
                 .fuzzy_matcher()
-                .match_repositories(&self.current_search, self.repositories);
+                .match_pattern(&self.current_search, &label_refs);
 
-            self.matched_repos = res;
+            self.matched_items = matched_keys
+                .into_iter()
+                .filter_map(|key| {
+                    self.items
+                        .iter()
+                        .find(|i| i.display_label() == key)
+                        .cloned()
+                })
+                .collect();
 
             if self.list.selected().is_none() {
                 self.list.select_first();
@@ -86,39 +121,41 @@ mod app {
         pub fn run(
             mut self,
             mut terminal: Terminal<TermwizBackend>,
-        ) -> anyhow::Result<Option<Repository>> {
-            self.update_matched_repos();
+        ) -> anyhow::Result<Option<T>> {
+            self.update_matched_items();
 
             loop {
                 terminal.draw(|frame| self.draw(frame))?;
 
                 if let Event::Key(key) = event::read()? {
-                    if let KeyCode::Char('c') = key.code {
-                        if key.modifiers.contains(KeyModifiers::CONTROL) {
-                            return Ok(None);
-                        }
+                    if let KeyCode::Char('c') = key.code
+                        && key.modifiers.contains(KeyModifiers::CONTROL)
+                    {
+                        return Ok(None);
                     }
 
                     match key.code {
                         KeyCode::Char(letter) => {
                             self.current_search.push(letter);
-                            self.update_matched_repos();
+                            self.update_matched_items();
                         }
                         KeyCode::Backspace => {
                             if !self.current_search.is_empty() {
-                                let _ = self.current_search.remove(self.current_search.len() - 1);
-                                self.update_matched_repos();
+                                let _ =
+                                    self.current_search.remove(self.current_search.len() - 1);
+                                self.update_matched_items();
                             }
                         }
                         KeyCode::Esc => {
                             return Ok(None);
                         }
                         KeyCode::Enter => {
-                            if let Some(selected) = self.list.selected() {
-                                if let Some(repo) = self.matched_repos.get(selected).cloned() {
-                                    terminal.resize(ratatui::layout::Rect::ZERO)?;
-                                    return Ok(Some(repo));
-                                }
+                            if let Some(selected) = self.list.selected()
+                                && let Some(item) =
+                                    self.matched_items.get(selected).cloned()
+                            {
+                                terminal.resize(ratatui::layout::Rect::ZERO)?;
+                                return Ok(Some(item));
                             }
 
                             return Ok(None);
@@ -133,33 +170,22 @@ mod app {
 
         fn draw(&mut self, frame: &mut Frame) {
             let vertical = Layout::vertical([Constraint::Percentage(100), Constraint::Min(1)]);
-            let [repository_area, input_area] = vertical.areas(frame.area());
+            let [list_area, input_area] = vertical.areas(frame.area());
 
-            let repos = &self.matched_repos;
+            let display_items: Vec<String> =
+                self.matched_items.iter().map(|i| i.display_label()).collect();
 
-            let repo_items = repos
-                .iter()
-                .map(|r| r.to_rel_path().display().to_string())
-                .collect::<Vec<_>>();
+            let list_items: Vec<ListItem> =
+                display_items.into_iter().map(ListItem::from).collect();
 
-            let repo_list_items = repo_items
-                .into_iter()
-                .map(ListItem::from)
-                .collect::<Vec<_>>();
-
-            let repo_list = ratatui::widgets::List::new(repo_list_items)
+            let list = ratatui::widgets::List::new(list_items)
                 .direction(ratatui::widgets::ListDirection::BottomToTop)
                 .scroll_padding(3)
                 .highlight_symbol("> ")
                 .highlight_spacing(ratatui::widgets::HighlightSpacing::Always)
                 .highlight_style(Style::default().bold().white());
 
-            StatefulWidget::render(
-                repo_list,
-                repository_area,
-                frame.buffer_mut(),
-                &mut self.list,
-            );
+            StatefulWidget::render(list, list_area, frame.buffer_mut(), &mut self.list);
 
             let input = Paragraph::new(Line::from(vec![
                 Span::from("> ").blue(),
diff --git a/crates/gitnow/src/main.rs b/crates/gitnow/src/main.rs
index d3f3ede..579d415 100644
--- a/crates/gitnow/src/main.rs
+++ b/crates/gitnow/src/main.rs
@@ -2,7 +2,10 @@ use std::path::PathBuf;
 
 use anyhow::Context;
 use clap::{Parser, Subcommand};
-use commands::{clone::CloneCommand, root::RootCommand, shell::Shell, update::Update};
+use commands::{
+    clone::CloneCommand, root::RootCommand, shell::Shell, update::Update,
+    worktree::WorktreeCommand,
+};
 use config::Config;
 use tracing::level_filters::LevelFilter;
 use tracing_subscriber::EnvFilter;
@@ -20,6 +23,8 @@ mod git_provider;
 mod interactive;
 mod projects_list;
 mod shell;
+mod template_command;
+mod worktree;
 
 #[derive(Parser)]
 #[command(author, version, about, long_about = Some("Navigate git projects at the speed of thought"))]
@@ -27,6 +32,10 @@ struct Command {
     #[command(subcommand)]
     command: Option<Commands>,
 
+    /// Path to config file (default: ~/.config/gitnow/gitnow.toml, or $GITNOW_CONFIG)
+    #[arg(long = "config", short = 'c', global = true)]
+    config: Option<PathBuf>,
+
     #[arg()]
     search: Option<String>,
 
@@ -51,6 +60,7 @@ enum Commands {
     Init(Shell),
     Update(Update),
     Clone(CloneCommand),
+    Worktree(WorktreeCommand),
 }
 
 const DEFAULT_CONFIG_PATH: &str = ".config/gitnow/gitnow.toml";
@@ -66,20 +76,24 @@ async fn main() -> anyhow::Result<()> {
         )
         .init();
 
-    let home =
-        std::env::var("HOME").context("HOME was not found, are you using a proper shell?")?;
-    let default_config_path = PathBuf::from(home).join(DEFAULT_CONFIG_PATH);
-    let config_path = std::env::var("GITNOW_CONFIG")
-        .map(PathBuf::from)
-        .unwrap_or(default_config_path);
+    let cli = Command::parse();
+    tracing::debug!("Starting cli");
+
+    let config_path = if let Some(path) = &cli.config {
+        path.clone()
+    } else {
+        let home =
+            std::env::var("HOME").context("HOME was not found, are you using a proper shell?")?;
+        let default_config_path = PathBuf::from(home).join(DEFAULT_CONFIG_PATH);
+        std::env::var("GITNOW_CONFIG")
+            .map(PathBuf::from)
+            .unwrap_or(default_config_path)
+    };
 
     let config = Config::from_file(&config_path).await?;
 
     let app = app::App::new_static(config).await?;
 
-    let cli = Command::parse();
-    tracing::debug!("Starting cli");
-
     match cli.command {
         Some(cmd) => match cmd {
             Commands::Init(mut shell) => {
@@ -91,6 +105,9 @@ async fn main() -> anyhow::Result<()> {
             Commands::Clone(mut clone) => {
                 clone.execute(app).await?;
             }
+            Commands::Worktree(mut wt) => {
+                wt.execute(app).await?;
+            }
         },
         None => {
             RootCommand::new(app)
diff --git a/crates/gitnow/src/shell.rs b/crates/gitnow/src/shell.rs
index 986d45c..8f0d6a1 100644
--- a/crates/gitnow/src/shell.rs
+++ b/crates/gitnow/src/shell.rs
@@ -1,3 +1,5 @@
+use std::path::Path;
+
 use anyhow::Context;
 
 use crate::{app::App, git_provider::Repository};
@@ -20,10 +22,14 @@ impl Shell {
             .directory
             .join(repository.to_rel_path());
 
-        if !project_path.exists() {
+        self.spawn_shell_at(&project_path).await
+    }
+
+    pub async fn spawn_shell_at(&self, path: &Path) -> anyhow::Result<()> {
+        if !path.exists() {
             anyhow::bail!(
                 "project path: {} does not exists, it is either a file, or hasn't been cloned",
-                project_path.display()
+                path.display()
             );
         }
 
@@ -31,7 +37,7 @@ impl Shell {
             .context("failed to find SHELL variable, required for spawning embedded shells")?;
 
         let mut shell_cmd = tokio::process::Command::new(shell);
-        shell_cmd.current_dir(project_path);
+        shell_cmd.current_dir(path);
 
         let mut process = shell_cmd.spawn().context("failed to spawn child session")?;
 
diff --git a/crates/gitnow/src/template_command.rs b/crates/gitnow/src/template_command.rs
new file mode 100644
index 0000000..82a6716
--- /dev/null
+++ b/crates/gitnow/src/template_command.rs
@@ -0,0 +1,146 @@
+use std::collections::HashMap;
+
+use anyhow::Context;
+
+pub const DEFAULT_CLONE_COMMAND: &str = "git clone {{ ssh_url }} {{ path }}";
+pub const DEFAULT_WORKTREE_CLONE_COMMAND: &str =
+    "git clone --bare {{ ssh_url }} {{ bare_path }}";
+pub const DEFAULT_WORKTREE_ADD_COMMAND: &str =
+    "git -C {{ bare_path }} worktree add {{ worktree_path }} {{ branch }}";
+pub const DEFAULT_LIST_BRANCHES_COMMAND: &str =
+    "git -C {{ bare_path }} branch --format=%(refname:short)";
+
+pub async fn render_and_execute(
+    template: &str,
+    context: HashMap<&str, &str>,
+) -> anyhow::Result<std::process::Output> {
+    let (program, args) = render_command_parts(template, &context)?;
+
+    tracing::debug!("executing: {} {}", program, args.join(" "));
+
+    let output = tokio::process::Command::new(&program)
+        .args(&args)
+        .output()
+        .await
+        .with_context(|| format!("failed to execute: {} {}", program, args.join(" ")))?;
+
+    Ok(output)
+}
+
+fn render_command_parts(
+    template: &str,
+    context: &HashMap<&str, &str>,
+) -> anyhow::Result<(String, Vec<String>)> {
+    let env = minijinja::Environment::new();
+    let rendered = env
+        .render_str(template, context)
+        .context("failed to render command template")?;
+
+    let parts =
+        shell_words::split(&rendered).context("failed to parse rendered command as shell words")?;
+
+    let (program, args) = parts
+        .split_first()
+        .ok_or_else(|| anyhow::anyhow!("command template rendered to empty string"))?;
+
+    Ok((program.clone(), args.to_vec()))
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+
+    #[test]
+    fn test_render_clone_command() {
+        let context = HashMap::from([
+            ("ssh_url", "ssh://git@github.com/owner/repo.git"),
+            ("path", "/home/user/git/github.com/owner/repo"),
+        ]);
+
+        let (program, args) = render_command_parts(DEFAULT_CLONE_COMMAND, &context).unwrap();
+        assert_eq!(program, "git");
+        assert_eq!(
+            args,
+            vec![
+                "clone",
+                "ssh://git@github.com/owner/repo.git",
+                "/home/user/git/github.com/owner/repo"
+            ]
+        );
+    }
+
+    #[test]
+    fn test_render_jj_clone_command() {
+        let template = "jj git clone {{ ssh_url }} {{ path }}";
+        let context = HashMap::from([
+            ("ssh_url", "ssh://git@github.com/owner/repo.git"),
+            ("path", "/home/user/git/github.com/owner/repo"),
+        ]);
+
+        let (program, args) = render_command_parts(template, &context).unwrap();
+        assert_eq!(program, "jj");
+        assert_eq!(
+            args,
+            vec![
+                "git",
+                "clone",
+                "ssh://git@github.com/owner/repo.git",
+                "/home/user/git/github.com/owner/repo"
+            ]
+        );
+    }
+
+    #[test]
+    fn test_render_worktree_clone_command() {
+        let context = HashMap::from([
+            ("ssh_url", "ssh://git@github.com/owner/repo.git"),
+            (
+                "bare_path",
+                "/home/user/git/github.com/owner/repo/.bare",
+            ),
+        ]);
+
+        let (program, args) =
+            render_command_parts(DEFAULT_WORKTREE_CLONE_COMMAND, &context).unwrap();
+        assert_eq!(program, "git");
+        assert_eq!(
+            args,
+            vec![
+                "clone",
+                "--bare",
+                "ssh://git@github.com/owner/repo.git",
+                "/home/user/git/github.com/owner/repo/.bare"
+            ]
+        );
+    }
+
+    #[test]
+    fn test_render_worktree_add_command() {
+        let context = HashMap::from([
+            (
+                "bare_path",
+                "/home/user/git/github.com/owner/repo/.bare",
+            ),
+            (
+                "worktree_path",
+                "/home/user/git/github.com/owner/repo/feature-x",
+            ),
+            ("branch", "feature/x"),
+        ]);
+
+        let (program, args) =
+            render_command_parts(DEFAULT_WORKTREE_ADD_COMMAND, &context).unwrap();
+        assert_eq!(program, "git");
+        assert_eq!(
+            args,
+            vec![
+                "-C",
+                "/home/user/git/github.com/owner/repo/.bare",
+                "worktree",
+                "add",
+                "/home/user/git/github.com/owner/repo/feature-x",
+                "feature/x"
+            ]
+        );
+    }
+}
diff --git a/crates/gitnow/src/worktree.rs b/crates/gitnow/src/worktree.rs
new file mode 100644
index 0000000..522cd09
--- /dev/null
+++ b/crates/gitnow/src/worktree.rs
@@ -0,0 +1,182 @@
+use std::collections::BTreeSet;
+use std::collections::HashMap;
+use std::path::{Path, PathBuf};
+
+use crate::{app::App, git_provider::Repository, template_command};
+
+pub struct Worktree {
+    app: &'static App,
+}
+
+impl Worktree {
+    pub fn new(app: &'static App) -> Self {
+        Self { app }
+    }
+
+    /// Returns the project path and bare path for a repository in worktree mode.
+    /// Layout: <project_path>/.bare/ for the bare clone,
+    ///         <project_path>/<branch>/ for each worktree.
+    pub fn paths(&self, repository: &Repository) -> (PathBuf, PathBuf) {
+        let project_path = self
+            .app
+            .config
+            .settings
+            .projects
+            .directory
+            .join(repository.to_rel_path());
+        let bare_path = project_path.join(".bare");
+        (project_path, bare_path)
+    }
+
+    /// Ensures a bare clone exists at `<project_path>/.bare/`.
+    /// Skips if already present.
+    pub async fn ensure_bare_clone(
+        &self,
+        repository: &Repository,
+        bare_path: &Path,
+    ) -> anyhow::Result<()> {
+        if bare_path.exists() {
+            tracing::info!("bare clone already exists at {}", bare_path.display());
+            return Ok(());
+        }
+
+        let template = self
+            .app
+            .config
+            .settings
+            .worktree
+            .as_ref()
+            .and_then(|w| w.clone_command.as_deref())
+            .unwrap_or(template_command::DEFAULT_WORKTREE_CLONE_COMMAND);
+
+        let bare_path_str = bare_path.display().to_string();
+        let context = HashMap::from([
+            ("ssh_url", repository.ssh_url.as_str()),
+            ("bare_path", bare_path_str.as_str()),
+        ]);
+
+        tracing::info!(
+            "bare-cloning {} into {}",
+            repository.ssh_url.as_str(),
+            bare_path.display()
+        );
+
+        let output = template_command::render_and_execute(template, context).await?;
+
+        if !output.status.success() {
+            let stderr = std::str::from_utf8(&output.stderr).unwrap_or_default();
+            anyhow::bail!("failed to bare-clone: {}", stderr);
+        }
+
+        Ok(())
+    }
+
+    pub async fn list_branches(&self, bare_path: &Path) -> anyhow::Result<Vec<String>> {
+        let template = self
+            .app
+            .config
+            .settings
+            .worktree
+            .as_ref()
+            .and_then(|w| w.list_branches_command.as_deref())
+            .unwrap_or(template_command::DEFAULT_LIST_BRANCHES_COMMAND);
+
+        let bare_path_str = bare_path.display().to_string();
+        let context = HashMap::from([("bare_path", bare_path_str.as_str())]);
+
+        let output = template_command::render_and_execute(template, context).await?;
+
+        if !output.status.success() {
+            let stderr = std::str::from_utf8(&output.stderr).unwrap_or_default();
+            anyhow::bail!("failed to list branches: {}", stderr);
+        }
+
+        let stdout = std::str::from_utf8(&output.stdout)?;
+        let branches: Vec<String> = stdout
+            .lines()
+            .map(|l| l.trim())
+            .filter(|l| !l.is_empty())
+            .filter(|l| !l.contains("HEAD"))
+            // Strip origin/ prefix if present (for non-bare repos or custom commands)
+            .map(|l| l.strip_prefix("origin/").unwrap_or(l).to_string())
+            .collect::<BTreeSet<_>>()
+            .into_iter()
+            .collect();
+
+        Ok(branches)
+    }
+
+    pub async fn add_worktree(
+        &self,
+        bare_path: &Path,
+        worktree_path: &Path,
+        branch: &str,
+    ) -> anyhow::Result<()> {
+        let template = self
+            .app
+            .config
+            .settings
+            .worktree
+            .as_ref()
+            .and_then(|w| w.add_command.as_deref())
+            .unwrap_or(template_command::DEFAULT_WORKTREE_ADD_COMMAND);
+
+        let bare_path_str = bare_path.display().to_string();
+        let worktree_path_str = worktree_path.display().to_string();
+        let context = HashMap::from([
+            ("bare_path", bare_path_str.as_str()),
+            ("worktree_path", worktree_path_str.as_str()),
+            ("branch", branch),
+        ]);
+
+        tracing::info!(
+            "creating worktree for branch '{}' at {}",
+            branch,
+            worktree_path.display()
+        );
+
+        let output = template_command::render_and_execute(template, context).await?;
+
+        if !output.status.success() {
+            let stderr = std::str::from_utf8(&output.stderr).unwrap_or_default();
+            anyhow::bail!("failed to create worktree: {}", stderr);
+        }
+
+        Ok(())
+    }
+}
+
+pub fn sanitize_branch_name(branch: &str) -> String {
+    let sanitized = branch.replace('/', "-");
+    if let Some(stripped) = sanitized.strip_prefix('.') {
+        format!("_{stripped}")
+    } else {
+        sanitized
+    }
+}
+
+pub trait WorktreeApp {
+    fn worktree(&self) -> Worktree;
+}
+
+impl WorktreeApp for &'static App {
+    fn worktree(&self) -> Worktree {
+        Worktree::new(self)
+    }
+}
+
+#[cfg(test)]
+mod tests {
+    use super::*;
+
+    #[test]
+    fn test_sanitize_branch_name() {
+        assert_eq!(sanitize_branch_name("feature/login"), "feature-login");
+        assert_eq!(sanitize_branch_name("main"), "main");
+        assert_eq!(
+            sanitize_branch_name("fix/nested/path"),
+            "fix-nested-path"
+        );
+        assert_eq!(sanitize_branch_name(".hidden"), "_hidden");
+    }
+}
diff --git a/examples/config/git-worktrees.toml b/examples/config/git-worktrees.toml
new file mode 100644
index 0000000..e6a53c4
--- /dev/null
+++ b/examples/config/git-worktrees.toml
@@ -0,0 +1,34 @@
+# Example: git with worktree support
+#
+# Uses bare repositories for worktrees. Directory layout:
+#
+#   ~/git/github.com/owner/repo/
+#   ├── .bare/       # bare clone
+#   ├── main/        # worktree
+#   └── feature-x/   # worktree
+#
+# Usage:
+#   gitnow worktree              # pick repo, then pick branch
+#   gitnow worktree myrepo -b main
+
+[settings]
+# Normal clone (used by `gitnow` without worktree subcommand)
+# clone_command = "git clone {{ ssh_url }} {{ path }}"
+
+[settings.worktree]
+# All of these are the defaults — shown here for reference.
+# You only need [settings.worktree] if you want to override them.
+
+# Bare clone for worktree repos
+clone_command = "git clone --bare {{ ssh_url }} {{ bare_path }}"
+
+# Create a worktree from the bare repo
+add_command = "git -C {{ bare_path }} worktree add {{ worktree_path }} {{ branch }}"
+
+# List branches in the bare repo
+list_branches_command = "git -C {{ bare_path }} branch --format=%(refname:short)"
+
+[[providers.github]]
+current_user = "your-user"
+access_token = { env = "GITHUB_ACCESS_TOKEN" }
+organisations = ["your-org"]
diff --git a/examples/config/jj-worktrees.toml b/examples/config/jj-worktrees.toml
new file mode 100644
index 0000000..fae0a5f
--- /dev/null
+++ b/examples/config/jj-worktrees.toml
@@ -0,0 +1,42 @@
+# Example: jj (Jujutsu) with workspace support
+#
+# Uses jj for both normal clones and worktrees/workspaces.
+#
+# Normal clone (`gitnow`):
+#   ~/git/github.com/owner/repo/   # jj git clone
+#
+# Worktree/workspace (`gitnow worktree`):
+#   ~/git/github.com/owner/repo/
+#   ├── .bare/       # jj git clone (used as the main repo)
+#   ├── main/        # jj workspace
+#   └── feature-x/   # jj workspace
+#
+# Usage:
+#   gitnow                        # clone with jj, enter repo
+#   gitnow worktree               # pick repo, then pick branch/workspace
+#   gitnow worktree myrepo -b main
+
+[settings]
+# Use jj for normal clones
+clone_command = "jj git clone {{ ssh_url }} {{ path }}"
+
+# Runs after a project is fetched for the first time
+post_clone_command = "jj git fetch --all-remotes"
+
+# Runs when jumping to an already-cloned project
+post_update_command = "jj git fetch --all-remotes"
+
+[settings.worktree]
+# Clone the repo for worktree use
+clone_command = "jj git clone {{ ssh_url }} {{ bare_path }}"
+
+# Create a new jj workspace for the selected branch
+add_command = "jj -R {{ bare_path }} workspace add --name {{ branch }} {{ worktree_path }}"
+
+# List bookmarks from the jj repo (one name per line)
+list_branches_command = "jj -R {{ bare_path }} bookmark list -T 'name ++ \"\\n\"'"
+
+[[providers.github]]
+current_user = "your-user"
+access_token = { env = "GITHUB_ACCESS_TOKEN" }
+organisations = ["your-org"]