Those are some good points, and it may very well have been the father. However, the main reason I don't think it was him is I find it unlikely that his wife would defend him after he murdered their daughter. It seems way more likely that Patsy would defend her son, who was just a kid, than her husband who's a grown man and should have known better. I was in the scouts when I was a kid, and by the age of 8, 9, and 10, I could tie some really good quality knots. It's possible for a kid to have learned that, even if he wasn't in the scouts. Another kid could have taught him or he could have read up in the library on how to do it.
There is also evidence of Burke getting revenge on JonBenet, for example, he smeared feces on her Christmas presents. Here's an article by someone who thinks Burke did it:
https://www.dailymail.co.uk/news/ar...d-older-brother-Burke-smeared-feces-wall.html
However, I don't know for 100 percent certain. Maybe the father did it, and for some emotional reason the mother still wanted to defend him. A distant possibility still would be a relative whom they let come over, but didn't mention. Did they have a weird sibling or cousin who had a thing for her? That person would have to be someone they were emotionally bonded with to want to protect him with that ridiculous ransom note.
I'm nearly completely sure that Patsy wrote the note. It's way too literate (with deliberate misspellings), and it takes their feelings into consideration too much. I would expect a real ransom note to be curt and to the point, something like, "We have your daughter. Don't call the cops. We will call between 6 and 7 with further instructions." A real kidnapper would be super brief and may not even demand an amount in the note when they can do so over the phone." It's bizarre that the note included things like this sentence: "The delivery will be exhausting so I advise you to be rested." The kidnapper is giving them health advice? Right.
The case is bizarre. For me, the strangest thing is that absurd ransom note. Did they really think that was believable and would keep the cops off their trail? You would think a parent who killed their kid, but wanted to cover it up would go off and dispose of the body somewhere, and then do a way better job faking a break-in. You would be better off going with no random note. Just have a windows broken from the outside and a missing daughter. The less evidence the better.