That's most likely slow file uploads (the requests you've showed are all POSTs), something that can't fit into the limit.
You can set a greater timeout value for application paths where uploads can be possible. If you are using and ingress controller you'd better create a separate ingress object for that. You can manage timeouts with these annotations, for example:
annotations:
nginx.ingress.kubernetes.io/proxy-send-timeout: 300s
nginx.ingress.kubernetes.io/proxy-read-timeout: 300s
These two annotations define the maximum upload time to 5 minutes.
If you are configuring nginx manually, you can set limits with proxy_read_timeout and proxy_send_timeout.
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