My response would be, do both controllers still work?
I have a similar situation on my system with a RAID controller for my hard drives, and another SCSI controller for my tape and cd-rom drives, however the "hw -r pci" command does NOT show them as sharing the same interrupt on my system.
If you are experiencing a problem with one or both controllers, it may be possible to change the IRQ from within the controller's firmware, or changing the IRQ of one of your other devices may allow the PCI plug-and-play to select a different interrupt. Check the controller documentation about this.
If you have any hardware experience you are probably already aware that plug-and-play interrupts can be tricky when there are more than just a couple of devices fighting for an interrupt. Getting everything working is usually a matter of trial and error with changing the settings.