Having a shorthand of the reactor configuration on the main screen would make it easier to share screen shots with other players so we can compare apples to apples.
For people who like to play around and tinker with things, it would be nice to be able to tell a manager to "stop managing" for a bit. Let us click the progress bar and pause a particular shop until we choose to click it back on. Would give us the chance to experiment a little more with what some of the shops besides bank and oil rigs after you get 200+ of everything.
@Mantil: He made the request for a reset skills button. I would heartily agree with this, though I can see the argument made for forcing one to choose wisely. Perhaps a good compromise would be that reset skills could actually cost some skill points. Something like 1 s.p. for levels 1-10, 2 s.p. for levels 11-20, and 3 s.p. for level 21+. This gives us to option to try something new without starting over, but does impose a cost.
FWIW: I think the best way to deal with people who use up the clock is to incorporate a reserve timer. You get 30 seconds on the main timer (the one that is 60 seconds now) and 30 seconds on a reserve timer. After the main timer counts down, you go to the reserve. However, each time you make a move in under 10 (or 15) seconds, one second gets added to the reserve with a max of 60 seconds on the reserve. This would cut the average time spent per move waaaay down, but allow you up to a minute or more on really tough moves.