It does not matter where the complaint originated from as long as the complaint against BFL has legal merit.  The matter would be dealt with in jurisdiction of Johnson County or at the state level depending on which office moved against the company as BFL has a physical presence here.  If they do not have a registered agent handling their legal matters, then BFL would be served at their physical location.

Place incorporated does not protect the company from legal matters filed against their physical location.  If their registered agent (often a lawyer) is located in a different state than the physical location then the company will have to find legal council in the jurisdiction of the physical location where the legal action was brought forth.