PokéBase - Pokémon Q&A
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If you want some additional counters you could always look here: http://www.reddit.com/r/pokemon/comments/1t9xcc/need_a_safety_goggles_paralyzed_sturdy_shedinja/
just use a strong (doesn't have to be strong, but you don't want a weak pokemon on your team) pokemon with mold breaker, Haxorus is a personal faviorite.

3 Answers

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Best answer

These are the best methods:
• Stealth Rock, Spikes, Toxic Spikes.
• Toxic
• Will-O-Wisp
• Gastro Acid (Suppresses Sturdy allowing you to attack it)
• Mold Breaker

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Confuse Ray if shedinja is paralyzed
core enforcer apparently nulifies abilities if used last.
2 votes

Now with sun and moon; Sunsteel Strike and Moongeist Beam both hit it, because it ignores ability.

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1 vote
  • Toxic
  • Will-O-Wisp
  • Mold Breaker + Any attack Shedinja is not immune to

Hope this helped!

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Sturdy Shedninja prevent's it from being knocked out by even super effective attacks, as it's always at full HP. But Teravolt and Turboblaze also work, tough there is no difference between them. (Or, for the logic, give a ice an ice-type Turboblaze and a ground-type Teravolt :))