EndNote X9 offers some additional features that might be necessary for your discipline and work flow. Zotero and Mendeley are relatively young tools when compared to EndNote.
For continuously updated Mendeley information and excellent help pages, check their website. *Pricing structure: Mendeley follows the "freemium" model: 2 GB for the free version with additional storage available for purchase. Mendeley is owned by the for-profit publishing company Elsevier. You may also edit with another Mendeley user simultaneously. Mendeley’s PDF viewer has excellent, easy-to-use, built-in capability. has the strongest website and community platform. Your research content is primarily contained in PDF files: Mendeley has an integrated PDF viewer and can create citation records just from importing a PDF file. To make an appointment for help, see Zotero Help appointment button on your left. In addition, the Libraries have more support available for the Zotero program. WUSTL Libraries has a helpful Zotero guide. For continuously updated Zotero information, downloading, and excellent help pages, and forums, check their website. *Pricing structure: Zotero follows the "freemium" model: 300 MG for the free version with additional storage available for purchase. Zotero is open source and cannot be acquired by a company. Zotero has built in PDF reading and annotation tools. You can also enable the retrieval of PDF metadata, which allows you to create citation records just from dragging a PDF into Zotero. Zotero's single-click capture works with many databases and websites, and works well with many catalogs, including WU Classic, MOBIUS, and WorldCat (FirstSearch interface) It gathers citation records for non-PDF and PDF content. Remember that you can switch between the tools, it just becomes less convenient the longer you use a tool and the more file attachments you collect. 
You cannot go wrong choosing any of the tools, but it helps if you take a few things into consideration before starting.
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