I tried manually loading this config in a VM and I'm still not sure what's causing the issue, maybe something isn't waiting properly for bonded interfaces to be created?:
vyos@vyos# load config.boot-cr01a-vyos.20240109_232428 Loading configuration from 'config.boot-cr01a-vyos.20240109_232428' Load complete. Use 'commit' to make changes effective. [edit] vyos@vyos# commit