Do you have queries that run for 66 minutes? (4000 seconds / 60 = 66.66 minutes)
Currently there’s a 600 seconds (10 minutes) timeout in the EBS image:
https://github.com/metabase/metabase/blob/master/bin/aws-eb-docker/.ebextensions/metabase_config/metabase-setup.sh
The only solution currently would be to manually change it on every update, or create your own image.
Also, where do you see EBS being “the recommended platform”?