This is a pretty cool game, I liked my play through. I played v.2.61windows.
The only thing I didn't especially like was how soon the clicker radius stopped growing. When I got to the later cube sizes the clicker radius wasn't enough to keep up. One more thing that I think could be cool would be a button or upgrade to have the game treat it as if you were constantly holding the mouse so you don't have to actually hold it down constantly.
I will list a few ideas i had for possible upgrades or features for the future.
Cube speed - It would be cool if you could change how fast the cube rotated. I feel this would fit pretty well as a relic effect.
Piercing - How it sounds. This one might be harder to implement and game breaking, but would be pretty fun.
Relic filter - The relic inventory fills up pretty fast with stuff that isn't wanted. By itself that isn't too annoying, but it does suck for trying to find better relics. I think a cool fix would be to have a few filters where you can set a minimum value for different effects and if a relic doesn't meet any of the requirements it is automatically recycled without filling up the inventory.
Sorry for the wall of text ToT. I am really excited for future updates.