If the Shun knives are cut at exactly 16 dps and the Sharpmaker's 30 degree inclusive setting is exactly at 15 dps, then you will be reprofiling for a while before you get to the actual edge of the knife. This could take forever and a day, or perhaps, since the angles are so close it won't take quite that long.
You need to figure out if you are going to be reprofiling or just sharpening, because that will determine the proper method to achieve the results you desire.
I am assuming that you already know the difference between reprofiling and sharpening... If you do find that you are reprofiling (because the Sharpmaker's 30 degree inclusive angle is in fact more acute than the Shun's 32 degree inclusive angle), than you will want start by using only the corners of the brown/grey stones.
-Only sharpen the right side of the knife until you develop a burr along the entire left side edge of the knife...
-Then only sharpen the left side of the knife until you develop a burr along the entire right side edge of the knife...
-After you do this, you can follow the Sharpmaker's instructions of using alternate strokes on the brown/grey corners...brown/grey flats...white corners...white flats...
-If the burr hasn't been completely removed by this point, then you can strop the knife...
The ideal set up, would be to use a bench stone (if you are good at freehand sharpening) or one of the guided rod systems, to reprofile to a more acute angle than the Sharpmaker's 30 degree setting, and then use the 30 degree setting on the Sharpmaker to create a micro bevel :thumbup: .
Hopefully you will find that the Shun knives are slightly more acute than the Sharpmaker's 30 degree angle, in which case you can skip the entire process explained above and just follow Sharpmaker's instructions only using the 30 degree setting, keeping your knives very sharp with little effort

.