Well that's a little ridiculous to criticize. Considering you effectively crouch when behind low cover. This is also slated as a cover based shooter, so why would you need a crouch system in the open? silly!
Agreed. The cover system works fantastically once you work out a decent movement rhythm. The double-tap to roll out of danger quickly is also well implemented.
Found a list of the main missions in suggested order by recommended level. Part of my problem was that I was focussing on completing as many missions in one category at a time - so I was actively looking for medical missions to try to get the medical wing up and running. Should be a balanced approach to get all three of the Base wings back online at the same time.
Rec. Level: Mission Name (Wing)
04: Madison Field Hospital (Med)
05: Lincoln Tunnel Checkpoint (Sec)
06: Subway Morgue (Tech)
07: Hudson Refugee Camp (Med)
08: Broadway Emporium (Med)
10: Napalm Production Site (Sec)
12: Times Square Power Relay (Tech)
14: Amherst's Apartment (Med)
16: Police Academy (Tech)
18: WarrenGate Power Plant (Tech)
20: Lexington Event Center (Sec)
22: Rooftop Comm Relay (Tech)
24: Queens Tunnel Camp (Sec)
26: Grand Central Station (Sec)
27: Russian Consulate (Med)