Not sure I am getting this but it sounds as if you want to connect 2 packs of 3 in series batteries in parallel, while at the same time maintaining the primary 6 batteries in series connection. This would ground both 3 packs, and they would aggressively discharge. Saw this done years ago with a novice, some jumper cables, two 12 volt car batteries and a fundamental misunderstanding of how to connect. Results were blown cell caps and battery acid everywhere. Hopefully this is not what you are proposing. If so please don't. Buy another 24 v fan, wire it parallel to the first if it is the same resistance and connect both to the 48v system or wire each fan separately to its own 3 in series pack (would be what I would do to avoid risk of blowing fan with lower resistance regardless of value listed). More airflow, and all 6 batteries discharged.
Also either your cart runs on 48 V or the 6 batteries are not wired in series, your second statement is confusing.
Last edited by dspeers; 06-28-2016 at 06:47 AM.