There is an option in the game to invert the Y axis in dragon form, but unfortunately not exposed in the options, and not in a configuration file that could be manually edited. There would need to be a patch to fix this.
As a workaround [EDIT: doesn't work

], you could switch the game back to an un-inverted camera, and use something like
Polynomial's Mouse Inverter to give you the desired controls in dragon form [EDIT: except it doesn't effect camera controls]. That would make control awkward in the menu and inventory, but at least there slow response time wouldn't be a critical issue. If you have a second USB mouse or are on a laptop you may be able to invert the axis of one mouse to use for combat, and switch to another mouse or trackpad for the game menu and inventory management, etc.