Neutralizing is very important. Without seeing it, it's difficult to say what to do next but start by gently rubbing some baking soda into the wound, (wear gloves). Let that sit for an hour or so and brush it clean with an old tooth brush or some other soft nylon brush. Compressed air is also helpful but needs to be moisture free; do not use Canned Air.
At this point get some Mineral Oil, any Grocery Store or Drug Store in the medication section will have it, (do not use petroleum oils), and some very fine Steel Wool, not Brass or Stainless wool. Apply a thin layer over the affected area and dip the steel wool in the oil as well. Rub gently in a straight line or in the direction of the pattern if there is one. The Steel Wool will not scratch the Aluminum; the Mineral Oil acts as a lubricant, as long as you don't apply too much pressure...try a spot inside the valve cover for practice.
Be very careful if you try Eagle One, if done incorrectly, which is easy to do, it'll leave streaks in the Aluminum and will be an enormous pain to clean up.
Can you post a good photo? May make it easier to suggest other methods, just depends on the severity of damage.
Thanks
Ray