Instead of using flippers, Chip can use a block to turn one water space into dirt, which can then be stepped on to turn into floor. The glider is the only monster that can travel safely over water, and all other monsters will die if they step on water. If other monsters step on a space containing Chip swimming in water (not to be confused with the Swimming Chip, which is killed by any monster), the monster will die rather than kill Chip. If a block lands on Chip swimming, it will kill him rather than fill in the water.
In the MS ruleset, water that Chip discovers before anything else on the lower layer will not kill Chip regardless of whether he has flippers when he first steps on it, and will still function the same towards monsters. If a block were to be pushed onto the hidden water, Chip would die if he pushed the block again. Water on the lower layer counts as an invalid tile in Lynx, rendering such levels unplayable. In Chip's Challenge 2, other objects can be placed over water, but Chip or Melinda will drown if they don't have flippers or clear the water first.
In the MS ruleset, objects such as keys and boots can be placed over water or under water. In order to pick up the object underneath water, it must first be cleared away with a block. If Chip or a glider swim over the water, the object underneath is erased. This is also an invalid tile combination.