The greater the imbalance between the two systems, the more likely individuals were to engage in problematic social media use behaviours, researchers said.
Researchers, including those from DePaul University in the US, obtained responses from about 341 undergraduate college students who use Facebook.
They collected and analysed problematic Facebook use data during one semester and then followed up with each student the next year to track their academic performance - in this case using grade point average - for both semesters and cumulatively.
System 1 is automatic and reactive, quickly triggered, often subconsciously, in reaction to stimulus such as a sight of or notifications from social media, said Hamed Qahri-Saremi, of DePaul University.
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System 2 is a reflective, reasoning system that moves more slowly, regulates cognitions, including the ones generated by system 1, and controls behaviours, said Qahari-Saremi.
The second system can help individuals control impulses and behaviours that are not in their best interest, he added.
As many as 63 per cent reported using Facebook while talking face-to-face with others and 65 per cent reported using Facebook at work instead of working.
"The clear and strong effect of problematic social media use on an academic performance was astounding," said Ofir Turel, a professor at California State University in the US.
"A slight increase in problematic social media use translates into significant grade loss, and this declined performance is persistent - it remained one year after our initial study," he added.