The court in Samsung's home country imposed a limited ban on national sales of products by both firms.
This includes Apple's iPad and iPad 2, along with the iPhone 3GS and the iPhone 4.
Samsung will be unable to sell its Galaxy Tab and the Galaxy Tab 10.1 slates in South Korea, or the Galaxy S or S2 smartphones.
The court ruled that US-based Apple had infringed two patents owned by Samsung, while Samsung had violated one of Apple's patents.
Apple was ordered to pay 40 million won (£22,000) in damages to its rival, while Samsung was told to pay Apple 25m won.
The ruling comes as a jury in California is deliberating on a major patent dispute between Samsung and Apple with billions of dollars at stake.
The damages imposed by the South Korean court are tiny compared to the $2.5 billion (£1.6bn) that Apple is demanding from Samsung in the US over alleged copying of its designs for the iPad and iPhone.
According to BBC News, Samsung was found guilty in South Korea of violating Apple's "bounce back" patent - technology that alerts mobile users that they have reached the bottom of the screen.
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However, the court ruled against Apple's claims that Samsung had copied the iPhone with the design of its Galaxy S smartphone, a key factor in the US trial.
"There are lots of external design similarities between the iPhone and Galaxy S, such as rounded corners and large screens... but these similarities had been documented in previous products," the judge was quoted as saying by Reuters.
"Given that it's very limited to make big design changes in touchscreen based mobile products in general... and the defendant [Samsung] differentiated its products with three buttons in the front and adopted different designs in camera and side, the two products have a different look."