They did....but then they also didn't. A lot of thought went into the pattern but it seems like they didn't go beyond that, like making it fire-resistant or otherwise more wearable for shipboard use. A lot like the first iteration of PT shirts that no one apparently bothered to work out in since it turned out they were see-through when they got wet. So now we have ended up with a green version of digis that says 'Navy' to no one at all. All of this courtesy of the Navy Uniform Board/TFU, a seemingly useless entity that hasn't decided hardly anything useful in the last 20+ years.
Hear, hear! I always thought the USCG fatigues were a great design we should adopt but since it wasn't invented here....
The 'non-fire retardant' thing is a Naval Enquirer-created 'controversy'. We've never had a fire-retardant shipboard working uniform for the non-snipes. Dungarees/wash khakis and SWOveralls were just cotton or poly-cotton...not like dungarees were made of nomex. Flash-proof was the only requirement, so that's the standard they used for NWUs. But the Navy Crimes talked about aquaflauge like it was going to spontaneously combust.
So the 'flameproof' thing is bullshit. But other than that, no, I can't say much to defend Aquaflauge. A 'working uniform' that's good for anything but actually working. The Navy got caught up in a fad (everybody needs their own licensed camo pattern!) and tried to rationalize it into something workable. They clearly put a lot of thought into the NWU's...just not much wisdom.
The Coasties have been wearing ODUs for about 15 years now, with only one major change (from a tucked-in blouse to untucked with waist pockets). NOAA and PHS have adopted it as their working uniform too. I will never stop being amazed at the Navy's compulsion to constantly re-invent the wheel just because we can.
The goddamned TFU hasn't produced a good result, to my knowledge, in its entire history.