[core] Investigate if warnings.warn calls can be replaced with INFO level logging

[t1m0thyj]

Now that we have logging in place, we might be able to remove the suppress_config_file_warnings flag and log some of the config file warnings at INFO level instead.

However I think that removing warnings that were already present would be outside the scope of the effort to add a logger, so this could be addressed in a separate issue 🙂

Originally posted by @t1m0thyj in #268 (comment)

[github-actions]

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[zFernand0]

Only print warning is the user needs to take action. Log otherwise.