The avenue towards making this a viable, routine cure for HIV is by performing a “transplant” of the patient’s own immune stem cells that have been genetically

The avenue towards making this a viable, routine cure for HIV is by performing a “transplant” of the patient’s own immune stem cells that have been genetically modified to carry the anti-HIV genes. That avoids (if done right) the horrific autoimmune challenges you describe, but like everything else it comes with its own technical challenges that are still being worked out. (I think https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4935568/ https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4935568/ is a good review of the whole idea.) To me (though I’m not an HIV researcher by any means!) this sounds like the most promising shot we have at regularly curing the disease.