Sletts, can I ask where you are located?
To Align my EQ6 I use the following procedure
1. Align the tripod towards south using a piece of wood between the bottom of the legs and a compass.
2. Mount the head and scope and counterweights leaving the centre bolt just loose enough to be able to move the head from side to side, but ensure the legs are fully spread.
3. Level the mount, this was the root of all my early problems with the eq6. Don't trust the in-built bubble level. To make this easier I made a plate that fits between the tripod and head. Instructions for this modification are here
http://members.iinet.net.au/~garin/EQ6plate.pdf
Some people don't like doing this with the scope on but I have found that placing the scope on afterwards can upset the level, Honestly I have had no issues doing it with everything assembled even wehn using my 10" newt on the EQ6.
4. Set the head angle to your location's lattitude using the markings on the scope or better yet an angle finder on the scope.
4. Align the finder scope, telrad with the main scope.
5. Align the scope in the home position, counterweight bar should be central and vertical and the scope should be pointed directly ahead towards south.
6. Using the finder scope I find the scp and centre the finderscope crosshairs on the scp, this gets easier each time you do it as the star formations get easier to recognise. I have attached a diagram of the star formation you're looking for, I can see this though a 9x50 finderscope on a non-full moon night from the suburbs in Perth (I look south towards the city).
7. Turn on the power Set your location, time (look out for daylight saving)
8. Commence a 2 star alignment, try and pic two stars either side of the meridian, the scope will slew to the first star but will be substantially out but within a 9x50 view centre and accept, the slew to the second star should be quite close by comparison cente and select. I use a 10mm eyepiece or 12mm reticle eyepiece
9. That should do it, goto an object and it should be pretty good certainly within a 25mm eyepiece view.
I can now usually do all of this in around 15 minutes.
Other things that can go wrong are :
. Loose scope that shifts as it slews
. Scope is not aligned correctly on the head, check up on cone error, basically the scope should stay centered on the object in view even when you release the r/a clutch and rotate the head.
.Inadvertantly or deliberately releasing the r/a or dec clutches after alignment, if you do this you have to realign.
. Low battery power.
Hopefully this may help.