Is this going to be conflict of counties or can I still get the divorce because I already paid over $400 for these divorce papers to be processed?

You are permitted to file in the county where you reside so long has you have lived there for 3 consecutive months before you filed. If your spouse filed a divorce petition in another county, then the general rule is the Petition that is served first on the other spouse would take precedent and be the prevailing case. Thus, you should try to serve your Petition on your spouse as soon as possible if it is unserved at this time.