But yeah, there is a lot of stories about patients with bad outcomes with colostomy bags. It sure beats dying of course. As a general rule of thumb: every time you cut into a human there is a high chance of things going wrong. The more you are changing after you cut into them the more likely and more severe the sideffects will be. (Very rough approximation of course.)
This is something i constantly think about cyborgs. They are a a staple of scifis, and usually portraied as stronger and faster than regular humans. But every cyborg with lets say a cybernetic arm would be medically an amputee. Every amputee can tell you that stumps suck. They get infected, or get pressure sores, or their skin gets irritated, etc etc unless you are treating them just right, and even then sometimes they hurt when you did everything right. How would you even grow metal and muscle/skin together without the meat constantly pulling away and getting infected? That is the real scifi not the brain-computer interface.