The FE 2.0x teleconverter will reduce detail, but not this badly.
I think that with the mass birds shots, your experiencing atmospheric distortion. It's quite a common issue at focal lengths like 800mm.
With the cormorant, you shot at way too high an ISO. I suspect that your RAW converter's noise reduction, set at default, applied too much luminescence reduction and smashed details. With DxO PhotoLab, I turn the luminescence NR down to 20 and raise Fine Detail to around 10 or 12. The blacks look pretty good here, so I'm wondering if you raised them. They needed to be raised, but it'll aggravate the NR softening issue.
Generally, you'll need to shoot at 800mm when the earth/air temperature ratios are low, OR shoot closer to your subjects.
Always be aware that too much NR kills feather and fur details; however, if you lower default settings for luminescence and raise Fine and Micro contrast (judiciously)
Here's high-ISO, with that same lens, using DxO's incredible PRIME NR, adjusted off its defaults: