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I would say the preheat coil is intended to be in the mixed air stream, like the PNNL reference manual suggested. Generally, the purpose of the preheat coil is to temper the air before it enters the cooling coil, and you might as well mix the return air first, since that is going to be warmer.
If you really want to waste energy, you could locate the preheat coil a few feet before the outdoor air intake :-)