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Well one advantage the Exceed will instantly have is that it can't be indoctrinated. Since the control metal should protect Sho's mind from their influence. A reaper is roughly estimated to be more then capable laying waste to city on their own and most mass effect universe weapons prove to be less effective on them, with a single reaper backed up by Geth forces proving to be a real threat to standard alliance forces. They are also appear to be protected a reactive kenetic barrier that blocks incoming fire. and all thats is pretty scary when up against the conventional... but Exceed is far from that. Given that its Giga-Smasher's power has increased in proportions to it's size and standard Gigantic's beam radius is about half the height of Cloud-Gate, it could easily one shot a Reaper with that weapon, in fact it would be major overkill as both its Pressure Cannon and Sonic Buster could likely get the job done. A reaper's reactive shield has also been shown to not activate for physical attacks, such as when one was attacked by a giant thresher maw, so Exceed's blades will likely work to. The Gravity Implosion makes this even more one sided.

The answer is likely that thats not what Thanos wants.