I just had a look at the 89-96 Parts manual and Owners manual, and the description of your cam alignment does not seem correct. I suggest you take another look at the bike and compare it with the pictures and descriptions in the manuals.
If you do not have the manuals you can download them free at http://www.husaberg.se/
Just click on downloads, previous, and scroll down to 89-96 Owners manual, and 89-96 parts manual. The pictures of the cam in the parts book is nearly identical to the pictures in the others up through 2003 for the cam info.
Are you sure you are at top dead center? are you measuring the piston position with a straw or something like that?
The ignition stator timing process is also described in the Owners manual.
The first Workshop manual that I know of is the 99 manual which you can download from THIS web site . Look to the left of the screen, and find Downloads, under Resources. You then go to parts manuals etc and there are 3 pages of items there to help you. Some of the manuals are in several parts because of their size.
The 99 manual should be a big help to you.
Let us know what you find out....