How do I merge .Net 3.5 assemblies with ILMerge?

I had trouble with this, and I searched for hours with no answer. I finally figured it out, so I will answer my own question for others to reference.

Solution

.Net 3.5 is merely an extension of .Net 2.0, so use the .Net 2.0 option in ILMerge to combine .Net 3.5 assemblies.

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