Yes. The only persistent data are two quest facts, both harmless integer flags with no vanilla game meaning. The game engine ignores unknown quest facts entirely.
You can safely remove Dynamic Wardrobe at any time without corrupting your save or causing errors.
Equipment-EX outfits are managed by EX itself — Dynamic Wardrobe only reads and loads them, never creates or modifies outfit data.
See Known Issues for save/load quirks, or Support if something isn't working as expected.