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Im pretty sure i read you cant have any lates in the past 12 months.. so maybe the late and also how long did you have your credit cards? they like to see 2-3 lines for at least a year. Also depending on the collection amounts that could be part of the issue, but they usually will tell you exactly what the problem is, hopefully the LO can provide more insight.
That 90 day is killing you, along with that UNPAID repo. Get the repo paid, settle the collections....when 12 clean months rolls around, you will probably be approved. Score isn't everything. Visit the mortgage forum for loads of advice and good luck!
I would find a new LO that is willing to work with you and tell you things.
Get one year of no lates behind you. Start writing those goodwill letters to see if any lates can be removed. Pay all current cards, on time, and don't let them report as high utilization...keep around 9%.