The Bumblebee Prequel is canon to the Expanded Universe, which means that some version of AoE and TLK are canon.
Sector 7 #4 (Sergeant Donavan)
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Bumblebee Movie Prequel (Heath Donavan, son of WW2 Donavan)
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He even has Jetfire from RotF, who was shown to be active throughout the Sector 7 comic series. Since Bumblebee Movie Prequel is directly connected to Sector 7, which is directly connected to Transformers Movie Prequel... then Bumblebee lost his voice in 10,000 B.C., regained or replaced it, landed on Earth sometime before 1944, continued living on Earth to the 1960s, went back to space, lost his new voice, and then went back to Earth in 2003. This is the intention of the Bumblebee prequel comic, it must be because these are DIRECT, undeniable connections to the IDW timeline. There's a list of references on my timeline.
Oh, and if you're placing Bumblebee in a separate Timeline, why not make the last two pages of the prequel as 1987 (leading to an alt. version of Bumblebee in the Bayverse)?