Okay, here's a picture I'll refer to:
http://www.moontrail.com/details/brunton/geotransit/brunton-geotransit-face300-.jpg
The strike is the orientation of the intersection of the rock plane and a horizontal plane. So let's say you have a bed that dips 45 degrees to the west. It has a north-south strike. You will measure the strike with the part of the compass labeled "C".
The numbers are written "backward" so that the needle will point to the correct number. In other words, if you are facing north and turn toward the east, your needle will move counterclockwise relative to the compass, which is why "90" is written to the left rather than the right. (I hope this makes sense- I'm not sure, but I think that's what you're getting at with the number confusion)
When you lay the compass flat against the strike of the bed (using the bubble level "A"), the needle will point to the azimuth of the strike. So in the example from the first paragraph, your needle would point to 0 and 180. You can report either number, because they mean the same thing, unless your professor/boss has a convention for you to follow.
To measure the dip, lay the side of the compass along the dip and move the clinometer ("H") until the bubble ("D") is level. Read the dip from the clinometer. (There should be a lever on the underside of the Brunton that controls the clinometer).
When you report dip, you have to say what direction it's dipping. For example, a bed with a north-south strike can dip either west or east, so you have to either specify which or use a consistent convention (like the right-hand rule).
Before you do this in the field, make sure it is set to the proper declination for your area:
http://www.ngdc.noaa.gov/geomagmodels/Declination.jsp
If none of this makes sense, just go here:
http://www2.gsu.edu/~geohab/pages/geol4013/bruntonCompass.htm
Good Luck