Bonesey -
I have been thinking about how to straighten the markers without removing the bezel. If they are in fact screwed in and held by the tension of the tightened screw behind the bezel here is a simple solution that may work. Basically, you could use some masking tape similar to how you unscrew a watch case back, using the sticky side of some tape and pressure.
I would take a small FLAT jewelers file and wrap some masking tape around the end, sticky side out. Hold the watch firmly in one hand and then press the tip of the jewelers file wrapped in tape to the very top of the marker with the thumb of my other hand. Then, being careful not to catch the bezel with the tape wrapped flat side of the jewelers file, apply pressure to the top of the file on top of the marker and twist it in the direction you want to rotate the marker. If the markers are held by slight tension from the screw, you may be able to move them slightly in the direction you need.
You will also get an idea on how tight or loose they are being held in the bezel by doing this. If you can't move them this way, you will undoubtedly have to remove the bezel. If my watch comes with the crooked markers I am going to try this before I remove the bezel.
If you don't have a jewelers file small enough you might get away with using the corner of a credit card with tape wrapped around the credit card sticky side out or maybe the eraser end of a pencil that is still flat and wrapped with tape. it will depend on how much pressure is needed to move the marker.