Update outdated links, paths, etc in scripts/setup.py

[clairew]

>> [CWE-Bench-Java/setup_mvn] Fetching Apache Maven 3.9.8...
--2025-07-08 15:35:24--  https://dlcdn.apache.org/maven/maven-3/3.9.8/binaries/apache-maven-3.9.8-bin.zip
Resolving dlcdn.apache.org (dlcdn.apache.org)... 2a04:4e42::644, 151.101.2.132
Connecting to dlcdn.apache.org (dlcdn.apache.org)|2a04:4e42::644|:443... connected.
HTTP request sent, awaiting response... 404 Not Found

At least the maven links should be updated.