Evaluating Gross Margin With or Without Depreciation

My question is how folks account for COGS-related depreciation expense when evaluating the trends/considerations of the margin profile of a company. To illustrate, let's say Company A has Revenue of $1,000, Material Cost of $500, COGS Depreciation of $100, and SG&A of $300. EBITDA margin here is simple at 20%, but gross margin could vary between 40% or 50% depending on if you take depreciation into consideration. Does it really even matter in benchmarking as long as you are applying the same methodology across comps?

Maybe my brain is just fried from the 100 hr weeks but this feels like a relatively basic concept that I am for some reason struggling to wrap my head around.