Current List of Issues I have found...

[Antearz]

Minor Issues:
-Biomass for the New Wilderness Origin is not Displayed properly.
-All Planets constantly have small numbers of Jobles People even tough there is Hundreds of Jobs available.
-The New Planet Management is alot less Intuitive and is often partially hidden within sub menues.

Moderate Issues:
-The AI does not seem to be very Good at dealing with the new Planetary Management and Economy. Its constantly having Revolts and will often not be able to even Survive without massive Subsidies from setting a Higher Difficulty.
-Fleet Management also is Bugged. Upgrading Ships and leaving them in the Fleet will cause the Fleet to not Recognize their Command Point Cost. Thus first needing to reestablish the Fleet to accept the new Units.

Major Issues:
-Resettlement of Pops has Broken the Ability to Abandon Planets.
If You drop below 100 Pops You get the 200 Influence Cost for Abandoning the Planet.
But if these are Seperated into 3-5 Blocks of 10-30 Pops. You may end up having to Pay the 200 Influence 3-5 Times to Abandon the Planet.