In 2367, the Archer was one of eleven Federation starships that were on standby to assist the USS Enterprise-D in evacuating the survivors of the Lolligan species to Starbases 213 and 85 so that Starfleet Medical can place them in hibernation chambers while they developed a cure for an unknown plague. The Archer was stood down when Doctor Beverly Crusher and her team developed a treatment.
In 2379, the Archer was assigned to Starfleet Battle Group Omega. Around stardate 56844, the the battle group was ordered to rendezvous with the USS Enterprise-E in sector 1045. The Enterprise-E was being pursued by the Reman warbird Scimitar, commanded by Praetor Shinzon. However, the Enterprise-E was forced to face the Scimitar alone after she was ambushed in the Bassen Rift.