A patch in newer kernel (3.19 and later) has a fix for this as below:

commit 2484f40780b97df1b5eb09e78ce4efaa78b21875
Author: Dan McLeran <[email protected]>
Date:   Tue Jul 1 09:33:32 2014 -0600

    NVMe: Add shutdown timeout as module parameter.
    
    The current implementation hard-codes the shutdown timeout to 2 seconds.
    Some devices take longer than this to complete a normal shutdown.
    Changing the shutdown timeout to a module parameter with a default
    timeout of 5 seconds.
    
    Signed-off-by: Dan McLeran <[email protected]>
    Signed-off-by: Matthew Wilcox <[email protected]>
    Signed-off-by: Jens Axboe <[email protected]>


However, this patch is not included in 3.13 or 3.16

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https://bugs.launchpad.net/bugs/1465136

Title:
  NVMe shutdown and suspend delay time is too short

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