I noticed a side effect of point system

I really don't think so. I think that without the point system, those people would just enter all of them.

A less amount of people entering means higher chances of winning. Hence, a person using their points is likely to get "more" for their money, even if the game isn't that popular.

it just means more unpopular games would only be entered by people that acctualy want it! problem? i see none

No problems with that. Think back to economics class and you'll realize this is perfectly healthy.

Yes the points sytstem is very good, giveaways now don't have much ppl like before 800 enters, now it is like 100. You must priority the games what you want, also you have much more winning chances like Slinden said.

SMB (super meat boy) has over 400 entries right now, and theres still a few hours left.