If you thought the telescope was aligned, but you can't find anything with x rays even though the telescope tells you it should be there, the telescope is probably misaligned after all. This tends to happen especially after the chamber has been moved significantly, for example when inserting or removing the order sortion mirros. I recommend you try the following trick that C. Jacobsen provided:
Remove everything from the beam path up to the detector. Make sure you adjust
the slits and the SGM such that you don't saturate the detector (i.e.
keep the flux under 1 MHz). You can now move the sample holder in
until it
cuts the flux on the detector in half, and then move the zone
plate wafer in
until it cuts the flux in half again. Then
align the telescope cross hair onto the corner formed by the holder edge
and the wafer edge. This is surprisingly accurate and should put you back in
business!