Since TNO is working on an update on the Patch Project, I've decided to update my Christmas list.

Aside from the previously mentioned river movement fix and optional paratroop jump from carriers, here are my Three Wishes:
1. Strategic Bombing. Allow certain bomber units to attack city improvements instead of units. Some risk of losses to the attacking aircraft would have to be built in, and increased if a SAM or SDI improvement was present. Nukes should destroy some (most?) of the improvements in cities as well.
2. Weaker Fundamentalists. The idea that everyone is happy under a fundamentalist government is complete BS. Only slightly less ridiculous is the idea that other nations will always forgive your spying. Having a fundamentalist government with espionage allows the human player to keep up with civs that invest heavily in research, while selling off his happiness and knowledge improvements, and raking in the dough with the complete support of his citizens. It makes fundamentalism too powerful, and is certainly not how things work in the real world.
The influence of religion
is enhanced under a fundy government to be sure, so why not simply have temples make 3 (or 4) people happy, instead of 2? And other governments
could forgive spying, so why not make it 50/50 that they get away with a given spying incident?
3.Transporting not limited to ships. In the real world trucks can carry some types of troops and so can airplanes. Existing workarounds in the game (eg. airports) aren't flexible enough.