I'm keeping the base versions of the game the same, that way I can guage balance, general tweaks, and bugfixing on feedback from both versions. The difference is that Patreon will gain more content from here on; such as new floors, new playable characters etc.
Beguiled launched 2 weeks ago, so currently the difference is Floor2 with 4 unique enemies and 5 new events. I'll be updating next week with 2 more enemies and hoping to add some more bits.