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- Dec 11, 2014
The last arc of the third movie was the battle against Meicrackmon. At first, the Digidestined only try to stop Meicrackmon (they don't know the reboot will start). When the reboot start, the Digimon try to put all the Digimon in Koushiro's cube (to protect their memories).I thought it was pretty clear that Meicrackmon needed to be in the digital space in order for the reboot to affect her.
It is why the entire last arc of the film happens.
It's only in the last minutes that HerculesKabuterimon throw away all the Digimon in the digital space. It can be other interpretations about his reasons for doing this.
The thing is that we don't have a confirmation that they need to be in the digital space to be affected for the reboot.