I knew there would be some teething problems with the upgrade, as the backend storage was completely rewritten, but I would have liked things to have gone smoother than they did. Most of the scheduling problems which have come up are due to the completely different way Anki fetches cards now. It used to take the whole deck and sort it in a complicated manner after every card to decide which card to show next. This was quite slow for large decks on moderately powered computers, but it was simple to implement and not very prone to error. Anki now builds 4 different queues on deck load to handle different types of cards, and has to maintain them correctly as you add and answer cards. To make things more complicated, Anki tries to avoid flushing changes to the DB on every card answer as it's slow, and that requires extra logic to make sure all data that needs to be available is always the most recent version.
It's unlikely that the card fetching mechanism will need to be drastically redesigned again, thankfully. Anki 1.1/1.2 will be largely GUI improvements & support for multimedia, and won't need any deck upgrades or syncing changes.
But on the 'a release every day' note, 0.9.5.1 is out :-) It's not set to auto-update, so you'll need to download it manually. Please test and let me know if any remaining scheduling problems show up.