So.... it is after Killing Fields, when "one of this first" squads of initiates are deployed? I was lead to believe (partially by the paradrops) that the MCV being worked on and later secured in a bunker is the new one built to replace the one captured by the allies and destroyed in the singleplayer campaign. Rashidi says in Killing Field's victory report that Yuri "almost" has his MCV.
If that were the case then co-op mission 1 and co-op mission 2 have a really huge time gap which would be from during pre-war times when Allieds occupied Russia to Epsilon mission 9-10.