These aren't really cons.
Since the IIe card will work on any LC, if the Mac screen geometry is an issue, move to a larger Mac, or better yet, add an external monitor to the CC (hacks & third party products will do this). I assume you are using it at the stock 512x384. This suggests your geometry problem is that it is not a standard 640x480 VGA resolution and like many of us, you have to scroll around documents and windows quite a bit. One solution to this is the VGA hack. However, I have no idea what that would do to the Apple II display. Presumably you would be forced to use the IIe Card 560x384 mode (twice that of the 280x192 high resolution Apple II graphics card) and it would still be available under the 640x480 hack.
The PRAM battery is easily replaced and necessary on most Macs of this vintage, so has little to do with the Mac-based use of a IIe Card.
Unlike the IIe, the ADB port means that the keyboard is easily replaced. There are numerous Apple and third party ADB keyboard options that approximate the sturdiness of the Apple IIe keyboard which was similar to the original 128K-Plus keyboards.