As a result, I turned on each .dll and .exe manually, since they do not change very often. It was pretty easy to format them in this style:
`<File Id="WhateverId" Name="NameToDisplayAfterInstall" Source="$(var.ProjectName.TargetDir)Filename.ext" />`
I used Excel to quickly and easily format a list of files. I put all these file tags in the <DirectoryRef Id="INSTALLLOCATION">
tag.
I figured out how to clear all dll and exes from a project using Heat (not paraffin) and compile a directory, not a project. Cleaning up the project gives only the basic EXE and DLL. The problem with building the directory, at least in my case, is that I got a lot of extra files (like .pdb and .xml) that I don't need.
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