I have a SWB ‘04 Eddie Bauer. I removed the factory subwoofer enclosure. Replaced the factory sub speaker with a Rockford Fosgate. I also stuffed as much polyfill inside the as I possibly could (makes the speaker think the enclosure is larger than it actually is; the Fosgate sub had a minimum enclosure size requirement). Ran power to it from a Memphis Audio amp. MIUCH better than factory. Should’ve done it long before the factory speaker took a dump.
Anyway, was shopping for a replacement enclosure for the ‘16 EL. Only found one but it’s expensive ($979), and usually not in stock. After my daughter pissed me off (she drives the old Expedition) I took the speaker, and amp, out of the truck. While sitting around one day I thought to myself, “Wait a minute… put that stuff in the other Expedition!”.
So, just gotta get pre-amp device and o connect to the new truck before throwing items in. I said all this to say… yes, the short wheel base truck did come with a factory sub (believe they still do in the proper trim). Correct me if I’m wrong.