Still having issues. I deleted all of my network configurations through the TUI (/etc/netcli), then powered off the system.
Afterwards, I replaced my second HBA with an Intel PRO/1000PT DP NIC. I then configured management on a newly created lagg0 (lacp, em0+em1), and vlan109 for data (lagg1, lacp, igb0+igb1).
Seeing TCP RESET ACKs when traffic goes through the default route of the FreeNAS box (regardless of interface). Therefore, my issue is unrelated.