Pokesav Black and White Issue. Two part question.

Part 1.
Ok so Pokesav works fine and everything I have no issues there. Although when I try to use it for more than 5 minutes at a time it suddenly closes and disappears off my desktop. I tried running it as admin, turning off my firewall and other such non sense. I'm using Windows 7.

Part 2.

I know a lot of people have posted about this so sorry for repeating but none of those solutions worked for me. I get the "An error has occured please turn off the power" message when I try and use the PC. I opened the file in pokesav to see that my whole third box was "empty" even though It was full. I tried deleting the whole third box but I still have problems. Also how do you delete individual pokemon from the box? I have alot of those ????????? pokemon for some reason and it only happens to my legendaries.