You didn't mention how did you get to 2 layers?
Did you remove all circuitary/line items/text etc. from the inner layers?
Did you reassign the layers?
Ascii out, check for MaximumLayer, 5th line on the ascii file (If it is properly done, it shouild say 2).
One thing to check - <Tools><Options>(Routing tab) - make sure your 'Layer Pair' is properly defined with your two remaining layers.
Thanks for the replies.
I removed the extra layers by:
1) deleting everything from the layers (traces / text / plane hash)
2) going into layer setup and modifying the electrical layer count to 2
3) reassigning layers so it deletes the ones without any data
I opened the design in PADs Router and did check the routing tab under options and the layer pair was defined correctly.
After going through every menu option in both Layout and Router I have managed to fix the problem.
I found another options dialog box by right clicking in the project explorer window and selecting properties (did this in Router. Layout has the properties grayed out).
This gave me a dialog called design properties and I found out that under the layer biasing tab the bottom layer's "allow routing" option would get unchecked when I reduced it to 2 layers.
All I had to do to fix it was check the allow routing option again on the bottom layer and it works like normal again!
not sure why it was getting unchecked in the first place.
So what if you have 6 layers in the design? Pads can be a pain to reduce the number of layers. You can get a 2 layer board by sending ONLY layers 1 and 6 to the fab house (plus layers for silkscreen, solder mask etc as needed). Be sure to rename the layers to make this clear.