PubMed: Web of Science: ĮndNote 5*, 6, 7, 8 and later use the proxy settings in the Windows Internet Options for HTTP-based connections such as the Web of Science, so make sure these are set correctly to recognize your proxy server. The standard address you will see here for 2 common sites are: You will find the URL under Server Address.
Click on the Connection Settings option on the left of the screen. Browse to the remote connection, highlight it and click Edit. Click on the Edit menu > Connection Files > Open Connection Manager. To find the setting to change in your proxy server settings do the following: You can add the URL for the HTTP-based connection as an exception. Here is another (but this might be the same as the FAQ info): If the steps listed above fail to resolve this problematic behavior, it has also been reported that unchecking the “Automatically detect settings” option on the “LAN Settings” window may resolve the issue. Try transferring references between EndNote X5 and EndNote Web again. In the Exceptions section, add “ ” to the list.Ħ. In Proxy Server section, click “Advanced”.Ĥ. Click the “Connections” tab, then press the “LAN Settings” button.ģ. Open Internet Explorer, then click “Tools>Internet Options”.Ģ. To correct this issue on a particular computer-ġ. However, these steps can also be applied to a single workstation. To resolve this issue for your entire site, it would be best to contact your IT department and ask that they add " ” to the sitewide proxy server exception list. The “A ‘Transfer References’ error has occurred (3)” message can be resolved by adding an exception for " ” within the proxy server settings associated with the computer network that you’re on. 
Have you checked this FAQ? or maybe this knowledgebase ariticle? (note added in edit- I hate that the links for the knowledgebase aren’t stable):
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