So I’ve gone all over the internet and I’m still confused with indestructible. Some things say that the creature with indestructible toughness hits zero it dies and some things say opposite. So I’m curious let’s say for example you have a 3/3 indestructible and you use it to block a 4/4. Would your indestructible creature die?
There is a difference between a creature being dealt lethal damage and having its toughness lowered to 0. In the example you gave, your creature would not die, as it is not destroyed by lethal damage. The rules state "02.12b A permanent with indestructible can’t be destroyed. Such permanents aren’t destroyed by lethal damage, and they ignore the state-based action that checks for lethal damage (see rule 704.5g).
Now consider this example. I play last gasp and target your indestructible 3/3 creature. Its toughness is lowered to 0, and it is moved to the graveyard. I did not deal it any damage, but it's toughness was lowered to 0. The rules state "704.5f If a creature has toughness 0 or less, it’s put into its owner’s graveyard. Regeneration can’t replace this event."
Barring special abilities that modify the results of damage, such as Wither or Infect, damage does not reduce a creature's toughness. What it does is it gets marked on the creature, and if marked damage (which can accumulate during a given turn, but gets cleared out in the cleanup step at the same time as "until end of turn" effects) equals or exceeds toughness, the creature normally gets destroyed as a state-based action. Indestructible allows a creature to ignore this rule. Actually reducing toughness is another thing entirely. If you do reduce toughness at or below 0, the creature dies, but that is not destruction, and indestructible won't help.
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I'm a former judge (lapsed), who keeps up to date on rules and policy. Keep in mind that judges' answers aren't necessarily more valid than those of people who aren't judges; what matters is we can quote the rules to back up our answers. When in doubt, ask for such quotes.
I feel like this is confusing to newer players because of games like Arena, where marked damage is shown by lowering toughness, even though that is not what is happening.
Cards that say "deals damage" usually won't destroy an indestructible creature, but "-x/-x" or "-1/-1 counters" will.
"-x/-x" or "-1/-1 counters" will [destroy an indestructible creature].
No, that's not true. The only things that can destroy a permanent are—
effects that say "destroy", and
the state-based actions that destroy a creature because of deathtouch or lethal damage
(C.R. 701.7a-b, 704.5g-h), and they are the only things the indestructible ability works against (C.R. 702.12). Nothing else counts as destroying a permanent, including dealing damage to it (C.R. 120.5), putting counters on it, or applying a "gets -N/-M" effect to it. See also this thread and this thread.
Now consider this example. I play last gasp and target your indestructible 3/3 creature. Its toughness is lowered to 0, and it is moved to the graveyard. I did not deal it any damage, but it's toughness was lowered to 0. The rules state "704.5f If a creature has toughness 0 or less, it’s put into its owner’s graveyard. Regeneration can’t replace this event."
Cards that say "deals damage" usually won't destroy an indestructible creature, but "-x/-x" or "-1/-1 counters" will.
EDIT (Feb. 24): Add rule citation.
(so that we can throw rocks at them)
(figuratively speaking, of course)
RULES OF MAGIC :
http://magic.wizards.com/en/game-info/gameplay/rules-and-formats/rules