Your relabel config labels away the port. (While it is in parentheses
in your regexp '([-_0-9A-Za-z.]+):([0-9]+)', it is not referred to in
the replacement string.)
My first guess would be that you have targets where the hostname is
the same and only the port differs. Your relabeling is then creating
identical metrics from different targets. However, that kind of
problem usually creates the "other" type of dropped samples, where the
time goes backwards.
In your case, the timestamp is identical, which usually means that
your monitored target is creating multiple copies of the same metric
in a single scrape. You can look directly at the `/metrics` endpoint
of the target is question and check if there are any lines in it that
only differ in the sample value. (Use your favorite pipe of shell
commands.)
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