Just wanted to update!
The difficulty level was
much lower than I had been led to believe. Water was (relatively) deep for this section of river and the obstacles were mostly strainers and submerged limbs that were easily crossed without the pedals in place. I ended up leaving the cassette well alone, untaped, and I noticed a small bit of drag when accelerating past high-current areas, but was fine overall.
Tracking was a little bit of an issue in some areas, but solved by deploying the rudder and then pulling it back up when a sharp turn was required. The Hobie was a fair bit more maneuverable than the other boats in the group, which left me some time to practice my sweep strokes and pivot turns in between obstacles. Thank you to those that read this post and even more thanks to those who replied!