I think your concerns are unfounded. At the port resonance frequency, the mass of air in the port is vibrating in phase with the cone motion, such that the cone motion is nearly zero. At that frequency, it provides more 'cushion' than any sealed cabinet. Above and below that frequency, the oscillations become progressively out of phase, and cone excursion increases. At higher frequencies, this is not a concern because the driver is operating in the mass-controlled region. Below the resonance frequency, excessive excursion is possible, and drivers have been damaged by this. However, the Sunn cabinet is tuned fairly low (my guess is 50-55 Hz), and I haven't heard of this being a significant failure mode. It could be, I suppose, if you're using a larger amp, as you are, and even more so if you're using a bass with a low B or lower. Overall, though, I think you'll be fine, especially if you listen to the sound of the speaker, and turn down if the drivers sound distressed. Also, keep in mind that none of this has anything to do with the size of the port. It could just as easily happen with the smaller, JBL-recommended port as with the larger Sunn port.
Of course, I could be wrong...