Add automatic dotfiles clone + stow

modules/home/dotfiles.nix clones ~/dotfiles on activation (only if not
already present) and stows every top-level package directory into
$HOME, independently per package so one conflict doesn't block the
rest. Removes home-manager's own git config management in favor of
letting the stowed ~/dotfiles/git/.gitconfig own it, and adds
homeConfigurations."tom@darwin" so the feature is usable on this Mac.
users/tom.nix now points home.dotfiles.repoUrl at the real repo.

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