From the file menu where you generate the map and run build, run the error checker. Hitech says he fixed the issue where it stopped catching spawn point errors after about 100 of them were laid done on the terrain. The error report will tell you about your spawns and anything else not ready for upload to HTC you have left to fix.
When you lay them down, zoom in a bit so the white circle is large, then take your tool set to rotate, just click on the circle in the direction you want the spawn to point other than N,E,S,W which are available as direction buttons. North is the default for "all objects" you lay down on your terrain including spawn directions.