I've been following this thread over the last few weeks...
1) When you say you are having tool marks it's un clear to me where you are having them. So could you post a picture of a cut part with the tool marks that are in question.
2) It was a good point to have a model with and with out holes. I completely agree with this concept as not having the holes allows the tool to cut across area's vs going down into them. You can "cap" the holes as well if you didn't want to have 2 models.
3) Sometime you get bad models due to the way the part was designed. Using un stitching and stitching will help you find the problem area. You may need to recreate surfaces from time to time. ( will all systems ) You would think all CAD designers are great at their job, but sometimes they " fudge" things to make them work and it can cause problems with the file when it comes time to machine it. Other times it's just how the CAD system stores the information which BobCAD may or may not like.
4) Surface normals, even through we treat surfaces as solids that have no thickness, the surface normal can play a role the quality of tool path. Not in all cases but it is recommend to have the surface normals facing the same direction ( either in or out). Sometimes a finish quality issue can be based on surface normals not facing the same direction.
5) Equi distant offset is a catch all tool path. This offset tyle will give a consistent surface finish over multiple surface bodies. Where you can run into an issue is with the change of direction. When cutting metals having a change in direction of the tool path can effect the surface finish. So sometimes using a planner tool path to limit the change in direction is all you need to get a good finish. In your example your cutting delrin, which is a plastic right? That being the case I can't see the change in direction having a big impact on the surface finish.
6) Remember if you are going to create multiple boundaries for cutting in 3D, that you always select the whole body or all the surfaces. BobCAD's gouge protection is based on what bodies are selected. So just make sure to select them all and limit cutting with a boundary.
I think burr and others have done a great job expressing concepts for cutting this part. In order for me to help more I need to "see" where the tool marks are on the part to understand what further steps I would recommend to handle them.
BTW I like rar files too
Al DePoalo
Partner Product Manager BobCAD CAM, Inc. 866-408-3226 X147