The level calculations have been updated to fix a few things:
Delete, RCnt, and Cnt chips are now valued higher
Slot-In chips don't count towards your level (They're useless right now anyways).
The level bonus for having chips that match your navi's element no longer applies to non-elemental navis since the AP bonus only applies to elemental chips.
Navi dodging ratings are now a factor in your level.
Level bonuses for Meteor chips are now properly calculated.