I'm not sure if these have been mentioned before, but I have found 2 bugs in the game creation process... one in the custom race creation area and one with the opponent selection screen.
The first bug happened when I was creating custom races. I created 6 custom races with no problem and saved them all. I then created a race for me to play as and saved it. After that, I went back to add 2 more custom opponents, but when I got to the Starting Techs tab, there was a problem. I have a screenshot:

As you can see, I have no techs added, but I have 0 points left. When I click Remove Tech, nothing happens, and when I click Add Tech, it tells me I don't have enough points. I had to save the Custom race, click the reset button, and then load the custom race. I then had 50 points for techs, but still no techs added. If I added a tech that was less than 50 points (say 25 points), the points switched to 200-25, or 175, and I could get back to 200 by removing the 25 point tech.
I also noticed that when setting Opponents' intelligence on the Opponent screen, if you set the opponent in the first spot and then click on any other opponent, and then click back on the first opponent, the intelligence of that first one gets switched back to "Fool" every time. This doesn't happen with any other spot.