On GPSmapedit I have found easier to convert all the .shp files to .mp and then only load the data needed to complete one 30x60 quad. GPSmapedit for some reason can load larger files in polish format. Also try closing the program and then reopening it if you run into a memory issue, for some reason this seems to free up "room" for larger files. Closing the file in mapedit doesn't help. I think it may have a memory leak.