Hi Rachel,
Not a problem, glad to hear you're on the right track! It's great to see the pages looking unique and much better for UX.
Looking at the elements flagged in your spam score breakdown, there are some relatively easy fixes in here still which may be contributing at least somewhat. To answer your question directly I would expect it will still be related to your link profile meaning less poor links and more quality ones will be the fix.
Don't forget that this score isn't a direct Google metric either. The entire Spam Score system is meant to be little more than a system of red flags for you to investigate - having a bad spam score isn't inherently a bad thing but it also shouldn't go ignored.
As for whether or not the Spam Score takes disavowed links into account, I can't find confirmation for this either way but I'd doubt it. This would require them having access to your Search Console to see the disavowed file.
Low MozTrust or MozRank Score / Large Site with Few Links These will obviously be resolved with ongoing link building but are likely the most significant factor in current score.
Small Proportion of Branded Links As you go about your link building, it tends to happen naturally but be sure to continue building links that use your brand name as the anchor.
Large Number of External Links You do have a fair volume of external links but they all appear to be legitimate so I'd ignore this one.
Low Number of Internal Links This one is quite valid. Beyond the nav I couldn't really see any internal linking practices going on. They shouldn't be promotional links within your blogs but just making sure that any piece of content that may be relevant to another page also includes a link. For example, if we mention Adwords on our SEO page, we'd include a link to our Adwords page for users who may want more information.
No Contact Info
May be caused by the fact that the phone number tends to show up with slightly unusual formatting in each instance; either:
- 855.4.CYNTOX (429.6869)
- 855.429.6869
I'd be interested to see if changing this to just 855 429 6869 would clear that flag in the spam score. Applying schema markup here may also help.
External Links in Navigation This seems to be referring to the nav links to your login areas so it's another area I wouldn't really worry about. Changing this would frustrate users for the sake of satisfying an arbitrary checkpoint in this list which is exactly what we're not supposed to do with a tool like this!
On an interesting side note, ahrefs is still showing 42 obviously spammy referring domains. This won't change anything to do with your spam score since Moz isn't pulling Ahrefs metrics but it may not be great for your Google rankings if they're seeing the same links.