Generally, the private rights that the government has in your property (e.g. as an easement holder) are unrelated to the regulatory jurisdictional authority of the Army Corps of Engineers and the DSL with regards to wetlands.
Without knowing the specific facts and findings related to your parcel, it's nearly impossible to give advice on what stage you're at or if the decision can or should be appealed. You should contact a lawyer.
Licensed in Oregon. Advice provided is general information only and is based solely upon the facts provided. It is not intended as legal advice applicable to any specific situation. No attorney/client relationship is created unless and until we have met and entered into a written representation agreement. Contact me at 541-250-0542 to discuss your matter further. www.MaugerLaw.com