Has your wife had any issues, such as with taxation or working more hours than what she was permitted, during her residence in the UK?
Be aware that like the rest of us, UKV&I caseworkers will also likely take leave at this time of the year.
It may be worth
applying for an SAR with the UKV&I to get an understanding of what held up your ILR application. That would help us advise you further on whether you can apply for naturalisation.
I am not a lawyer or immigration advisor. My statements/comments do not constitute legal advice. E&OE. Please do not PM me for advice.