The E-model did replace the F-111F, however the E model is dual-role. The F-111 training syllabus didn't have a strong background in Air to Air, so those that didn't previously have F-4 or F-15A/C time had some difficulty adapting to the air to air environment - or so it's been said. The initial batch of E-model pilots and WSOs were from E/F-111Fs, F-15A/C, and F-4 communities.
In my first Squadron in the late 90s, there were still numerous O-3s and up who'd been prior Phantom and Vark guys. You always knew that a former Phantom guy was gonna be average on the range while the 111 guy was gonna steal your milk money, and that in the 4-v-16 OCA vul the former Phantom flight lead was gonna rock and the former 111 guy probably wasn't.