The swollen limbs are generally (99.9%) from MBD. Since there is no calcium to strengthen the bones, they are replaced by fibrous tissue which makes them appear swollen. Infection is generally localized into abscesses in reptiles although that is a possibility as is liver or kidney failure.
The bones are straight from what I can see. MBD just looks different.
No offense intended, but MBD and bacterial infections look different from one another in person. You will see the MBD in the shape of the limbs. This kind of infection is pretty common in lizards which tend to scratch around and especially in chameleons because they climb on wire caging and end up with tiny abrasions where bacteria gets in.
The eye thing and the bacterial thing- I'm basing on 25+ years breeding lizards including chameleons on a fairly large scale. I don't know what you see in a lab or clinic setting, but usually the underlying issue with eyes and chameleons is the owner is not supplementing with vit a very frequently or at all and as a result, some problem, which guys like you see as the "true" problem, sets in. If the vit a is given frequently, the "true" problems are usually avoided altogether. Search the forums- and you will see eye problems again and again and you will find cases where what I recommended cleared the problem up.
The bacterial thing- I've seen many times, especially in wild caught animals such as this chameleon. They get tiny abrasions at some point and sometimes it takes months for the infection to really get in and manifest.
I could be wrong and you could be right- I just want you to know that I'm not pulling my advice out and guesses about what is going on with this animal out of nowhere. Been around lizards and veterinarians my whole life and been breeding for over 25 years.
In fact, this thread is kind of a sore issue for me because my wife took my sons iguana to the vet without me because I saw the lizard had a bacterial infection in a rear leg and since my father retired from teaching at the veterinary school and moved away I no longer have access to antibiotics. The vet who is new at the clinic they saw ended up spending about $1000 by the time we were done (for a $3 lizard eaten all over mexico). Much of that money was to pay a guy like you to tell me what I already knew- organs all very healthy had a bacterial infection and needed antibiotic. Also while she was at it said vet xrayed the lizard (bones very healthy no mbd) and we had to pay for overnight care and anesthesia stufff and for good measure tested it for parasites. And the lizard was treated with antibiotics and treatment was complete before we heard back from the guy like you we paid several hundred dollars to.
I now walk around the house calling the lizard the "golden dragon".