The amount of time air duct cleaning takes can depend on how extensive your duct system is, how old your air ducts are, and whether they have ever been cleaned. On average, expect a standard size home (between 2,000 and 3,000 square feet) to take 2-5 hours for one to two technicians to clean. Here are the proper protocol and equipment you should expect from a professional duct cleaning service, as recommended by the Environmental Protection Agency:
Duct cleaning has never been shown to actually prevent health problems. Neither do studies conclusively demonstrate that particle (e.g., dust) levels in homes increase because of dirty air ducts or go down after cleaning. This is because much of the dirt that may accumulate inside air ducts adheres to duct surfaces and does not necessarily enter the living space. It is important to keep in mind that dirty air ducts are only one of many possible sources of particles that are present in homes. Pollutants that enter the home both from outdoors and indoor activities such as cooking, cleaning, smoking, or just moving around can cause greater exposure to contaminants than dirty air ducts. Moreover, there is no evidence that a light amount of household dust or other particulate matter in air ducts poses any risk to health.
When you hire someone to put up wallpaper or build a fence, it's easy to see whether it's a good job. But with services like air duct cleaning, there's much more risk of fraud because the homeowner can't easily check the work. A disreputable company may not have the proper equipment to do a quality air duct cleaning job, may overcharge you, may leave the ducts dirty or filled with debris and may even do costly damage to your home's HVAC system. Some companies entice you with very low offers, such as $59 for a whole-house cleaning, then pile on extra charges. 
Equipment used to clean ducts varies widely. The cheaper the equipment used the more you are just wasting money. This is why it's typically not worth doing. In some situations it may be beneficial, but only after determining and investigating the duct system. This should be done by a licensed HVAC contractor and not a duct cleaner that typically do not hold and HVAC license. (Duct cleaners aren't required to be licensed in HVAC in many areas.)
Heating, ventilation, and air conditioning (HVAC) systems have been shown to act as a collection source for a variety of contaminants that have the potential to affect health, such as mold, fungi, bacteria, and very small particles of dust. The removal of such contaminants from the HVAC system and home should be considered as one component in an overall plan to improve indoor air quality.
Air duct cleaning service providers may tell you that they need to apply chemical biocide to the inside of your ducts as a means to kill bacteria (germs) and fungi (mold) and prevent future biological growth. They may also propose the application of a "sealant" to prevent dust and dirt particles from being released into the air or to seal air leaks. You should fully understand the pros and cons of permitting application of chemical biocides or sealants. While the targeted use of chemical biocides and sealants may be appropriate under specific circumstances, research has not demonstrated their effectiveness in duct cleaning or their potential adverse health effects. No chemical biocides are currently registered by EPA for use in internally-insulated air duct systems (see Should chemical biocides be applied to the inside of air ducts?).
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