As with all updates, the first thing that comes to mind is factory resetting the device. This clears all the remnants of the old version out of the system and resets app data that could cause inconsistencies. The downside is you'll lose all your apps and their data.
Normally I only do a factory reset in between major versions (3.2->4.0, 4.0.2->4.1 etc.), but if minor updates cause trouble, this would be a first step for me.
Oh yeah, the reset can be found in Settings -> Backup & reset -> Factory data reset
. Note that while this usually doesn't affect your sdcard (including internal storage), some devices may wipe that too. But not the Nexus series, so you're safe.