Wow this really went off on a tangent, and interestingly, I found this again, while looking for the solution on google… so, um… I’m still here… where stuff isn’t lined up quite right
see if this helps. I love Mango Jelly, I have learned loads from that channel!
this one may align better with what you are doing
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It looks like you have a 5x3 hole “tool” that you’re moving around. But the origin for that tool is one corner, not the center. I don’t know how to make that better in fusion.
I switched to OpenScad, and in ~70 lines of code, have this… programming is what I do. And this was way simpler imo. Made it parameterized so I can tweak the dimensions, and number of tracks
I can use this model now to make a few jigs, and speed up some of the finishing work on the CNC
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My boss borrowed a 3D Printer from school to play around with and I showed him Fusion, Inventor and Onshape and rather as a sidenote OpenScad. He is a mathematician/physicist… Guess which one he loves… 
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