Yes, folks agree high HDL is good, high LDL is bad. However, drug trials to raise HDL didn't work so well.
> "Are there really any studies that attribute atherosclerosis to bacteria, or some of the other conditions you describe?"
Yes! Many!
- "Accelerated Atherosclerosis in Autoimmune Rheumatic Diseases" https://www.ahajournals.org/doi/full/10.1161/CIRCULATIONAHA....
- "Deposition and hydrolysis of serine dipeptide lipids of Bacteroidetes bacteria in human arteries: relationship to atherosclerosis"
- "The immune system in atherosclerosis" https://www.nature.com/articles/ni.2001
- "Is atherosclerosis an autoimmune disease?" https://bmcmedicine.biomedcentral.com/articles/10.1186/1741-...
- "Atherosclerosis and the role of immune cells" https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4391004/
I keep getting the impression that using TC as a guide the ratio of number needed to treat vs morbidity reduced is kinda dismal.
Additionally, I think you will not find many studies that claim that high HDL is bad for you, whereas you will find many that claim it's good (because it protects from CVD). I can't say I see much of "a mess" here- just ordinary, progressing scientific understanding of a complex system.
Are there really any studies that attribute atherosclerosis to bacteria, or some of the other conditions you describe? If so- are there many of those and are they good quality studies? I am very skeptical of your comment's suggestion that the immune system may be involved in atherosclerosis.