It may last for a longer term than most emergencies; but still operates on a smaller timeline than legislatures are used to operating. The only analogous situation I can think of is wars, and those are already given special treatment (and have seen a steady growth in executive authority over the past decades).
Additionally, I am not aware of any executive (within the US) that has suspended or directly contradicted the legislative branch. If your issue is that the situation has gone on for too long to be dealt with using emergency authority, then your complaint is with the legislatures that have failed to either issue the rules themselves, or override the executive orders.
I could see an arguement for updating the various authorizations for executive orders to allow them to be repealed by a simple majority vote not subject to veto; or even by a minority vote. However, as far as I am aware, there has not been a major conflict at the state level where these powers would be relevant.