The short answer is yes, duct cleaning, done right by a reputable company will help with the smell. It is likely though the smell is coming from another source, ie the crawl space. It could also be that another rodent is dead in the duct work. A visual inspection would be in order to check for any breach in the duct system. A duct pressure test would be able to tell you how much air is leaking from the system over all. A hole large enough for an animal to enter would loses a great deal of air, over 300 CFM. It would be worth looking into having this test done and it should cost around $200. Cleaning the air handler and evaporator coil will greatly improve the performance of the air conditioner. Dirt and dust on the evaporator acts as insulation and reduces the amount of cooling done be the coil. Any quality duct cleaning should include cleaning the air handler and coil, and the tech should allow you to watch him perform the work as it is done.
All of the products discussed above are registered solely for the purpose of sanitizing the smooth surfaces of unlined (bare) sheet metal ducts. No products are currently registered as biocides for use on fiber glass duct board or fiber glass lined ducts, so it is important to determine if sections of your system contain these materials before permitting the application of any biocide.
I paid $49 for a groupon. When the guy came today, he did an inspection first and said the ductwork first needed to be treated for mold; $348 for a spray that would last 8 months or $680 for an UV light purifier that would last 2 years. Also, the furnace needed to be cleaned for another $260. When I told him to just clean the ductwork, he said I would owe an additional $305 because the groupon was only good for 1 return and I had 2. I sent him packing with no services performed. Thankfully I am only out of $49! I will complain to groupon.
I am in need of HVAC ADVICE!! I need a new furnace badly, mine is cracked. I have bought both a 95 % AFUE furnace and a 5 Ton evap coil, I figured it should all be replaced at once for both cost and efficency. My question is with all the negaitive things I have heard about companies ripping you off, what type of price should I pay someone for putting in those two items and bringing everything in my attic up to code? I have been quoted $550 - $ 3300. Wide margin here!! Then of course comes the licencing part!! I know in my heart that I should use a licenced contractor but I have had such bad luck and prices from them that honestly one that was licened in Ga. and just not here in TN and is a tech. which charges 1100 - 2200 less sounds good as so long as I pay some type of Profenial HVAC person say $100 to inspect the work after its done and before I pay them.
Did you know that cleaning your ducts and vents can help airflow and increase energy efficiency? According to the Environmental Protection Agency (EPA), keeping your air ducts and vents clear can increase energy efficiency and indoor air quality. While the cost to clean ducts and vents might sound high, the benefits to homeowners–especially those sensitive to allergens–is worth considering.

You should be aware that although a substance may look like mold, a positive determination of whether it is mold or not can be made only by an expert and may require laboratory analysis for final confirmation. For about $50, some microbiology laboratories can tell you whether a sample sent to them on a clear strip of sticky household tape is mold or simply a substance that resembles it.
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