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Earnings Per Share (Table) (Details) - USD ($)
$ / shares in Units, $ in Thousands
 3 Months Ended 9 Months Ended
Sep. 30, 2017
Oct. 01, 2016
Sep. 30, 2017
Oct. 01, 2016
Earnings Per Share Abstract        
Income (Loss) from Continuing Operations Attributable to Parent $ (6,027) $ (3,355) $ (17,833) $ (17,142)
Dividends and accretion on Series A Preferred Stock (1,954) 0 (5,848) 0
Earning (loss) from continuing operations available to common shareholders (7,981) (3,355) (23,681) (17,142)
Income (Loss) from Discontinued Operations, Net of Tax, Attributable to SunOpta Inc 0 0 0 (570)
Earnings (loss) available to common shareholders $ (7,981) $ (3,355) $ (23,681) $ (17,712)
Earnings Per Share, Basic, by Common Class, Including Two Class Method [Line Items]        
Weighted Average Number of Shares Outstanding, Basic 86,541,000 85,619,000 86,232,000 85,529,000
Dilutive Securities, Effect on Basic Earnings Per Share, Including Options and Restrictive Stock Units 0 0 0 0
Weighted Average Number of Shares Outstanding, Diluted 86,541,000 85,619,000 86,232,000 85,529,000
Antidilutive Securities Excluded from Computation of Earnings Per Share, Amount 1,518,129 1,873,871 2,488,826 2,453,271
Earnings (loss) per share - basic        
from continuing operations basic $ (0.09) $ (0.04) $ (0.27) $ (0.2)
from discontinued operations basic 0 0 0 (0.01)
Earnings Per Share Total (0.09) (0.04) (0.27) (0.21)
Earnings (loss) per share - diluted        
from continuing operations diluted (0.09) (0.04) (0.27) (0.2)
from discontinued operations diluted 0 0 0 (0.01)
Earnings Per Share Diluted Total $ (0.09) $ (0.04) $ (0.27) $ (0.21)
Options Held [Member]        
Earnings Per Share, Basic, by Common Class, Including Two Class Method [Line Items]        
Dilutive Securities, Effect on Basic Earnings Per Share, Including Options and Restrictive Stock Units 0 0 0 0
Antidilutive Securities Excluded from Computation of Earnings Per Share, Amount 917,702 31,582 850,013 20,534
Series A Preferred Stock [Member]        
Earnings Per Share, Basic, by Common Class, Including Two Class Method [Line Items]        
Dilutive Securities, Effect on Basic Earnings Per Share, Including Options and Restrictive Stock Units 0 0 0 0
Antidilutive Securities Excluded from Computation of Earnings Per Share, Amount 11,333,333   11,333,333