The battle predictor isn't always accurate. Sometimes it'll say no casualties and I wind up losing a capital ship. 

Shipyards need buttons to rearrange production the same as worlds.

Should be able to put unlimited repeats on anything such as modules and missions.

There still seems to be an issue whereby new planetary tiles appear off the map and seem to be inaccessible even though the planet says you can build.

The orb of dragonal space monsters are hiding in the slipstream and attacking my ships as the pass through. I cannot attack them because my ships just pass through the slip stream when I click on the space monsters positioned right at the gate.

There is a somewhat sneaky way to get additional Liberty choices by assigning a LOW Loyalty Leader to a not very important colony to make into a Core World. Then every so often he will start disparging you to your other Governors, and you will be offered a choice of actions to take: if you let him continue to speak about you, you will lose 10 Control Points but gain a Liberty choice each time for your possible assignments of Culture Points. Then a number of turns later he will do it again, and again, and again, and again.

In my current game, I am letting this continue until I can choose the last 2 Liberty Ideology choices; no maintenance cost for Star Bases, and  -25% to reduce decay rates for Cores. This will end up costing me 40 or 50 Control Points (I have enough Control Point income to be able to afford this) before I get rid of that Leader/Governor. I am almost there, he just needs to slander/disparge me one more time, and I can use Culture Points to get those 2 Ideologies (getting no maintenance costs on Star Bases should be very useful in the later stages of the game when we have a lot of Star Bases; and -25% to reduce decay will be useful as well). The lower cost Liberty Ideologies can also be accessed this way as well.

If you have some really HIGH Loyalty Governors you get from them occasional gains of 500 credits or 10 Control Points, which makes the loss of Control Points from the Low Loyalty Governor easier to handle.

Try checking out all of the Policies. I think that some of them give increases to various ideology choices. Also check Techs, Buildings, Wonders, and Achievements to see what they give, there may be some increases to various ideology choices there as well. Particularly those in the Governing areas.

Even Leaders that you hire can help.

I would expect that you know most of this, but I do not want to miss possibilities.

Another possibility is choices made in Race design/customization during Game Start/Setup that might have an affect.

twice I have been stuck in the research menu and the done button does nothing and esc stopped working. So I had to Ctrl alt del. 

I'm playing the base Terrans who have Innovation as their Ideology.  I don't see things that help with it. Most ideology points come from colonization dialogs and anomaly dialogs.  Sometimes an event occurs (like when they ask what is the key to the future or something and you get ideology points depending on your answer).  I'm careful with those, if they have an Innovation choice i pick it.

I have not seen a Leader who gives Innovation points if you recruit them.  I've seen others, like Calm or maybe Cruelty or Opportunity, but not Innovation.

I haven't tried any of the achievements except that Plague one and the Orb of Dragonol and didn't complete either yet.

I suspect this is just an early balancing issue where they just need to make sure opportunities are equal for all the Ideologies.  But restoring the more frequent colonization dialogs will help greatly.

I think they should lower the population growth rate in the next version. I avoid all of the life relics. Never assign a minister of health. I basically avoid every policy or anything else that could lead to population growth. I always use eugenics and keep that disease mission going just the lower population growth, And my population still grows so fast that I halfway through the game I'm building pop ships I can't even use just to get people off of my overcrowded planets. That's even more of a problem now that I can't get enough calm ideology to get above six without disapproval on a planet. I mean there's so many options to improve population growth. If anyone playing this game has ever run into problems with not having enough population please comment on this. Otherwise I really think the design team should lower the population growth rate.

Has anyone figured out how to upgrade ships in V.65 ?

- Just a little idea: we already get a notification "ships inside our control zone without open borders". Could this be presented in a clearer way? Maybe top-center or next to next-action-button?

- I am not sure about growth/approval. In my last games I had no big problems to get high approval at my core worlds. More pops mean more entertainers as well – if needed. A lower growth would mean that the need for more/faster core worlds would increase as well.
Approval: You should be really picky in regards of your governors. DL Bradley at Earth is 100% loyal and got a social of 17: people get +37% approval just by him.
In my last game as Terrans Earth was my only Core World for a long time: I had to stop building constructors / colony ships. It was not too bad but it pressured me enough to be motivated to do those "two free pops quests".
I also won all elections, but I had to prepare for it. Colonies: satellites and self-governance (+10% each) and low expectation colonists. Core Worlds: governors, entertainers and districts. Also: low taxes, approval policies and garrison ships. I just realized I did not celebrate festivals at my core worlds

I love getting "Rare" technologies, but it doesn't look like this one does anything - WIP=Work in progress?  So is it really an unfinished placeholder?

Sometimes when you try to research something that requires drones.  The question of if you want to spend drones on research doesn't pop up.  That was the cause of me having to shut the game down and that I was complaining about earlier.  I figured out just to switch to a different technology and that it would run but after I leave the tech thing however many times I click the done button and it didn't work. When I was trying to use a tech that requires drones is how many times I had the pop-up menu asking if I want to spend drones.