Lyric discussion by dhalsim2 

Cover art for Clean My Wounds lyrics by Corrosion Of Conformity

I completely disagree with Salivaltow's interpretation. I think Ddadutta is pretty close.

Here's my take:

In the first verse, the singer laments the evils in the world around him. In referring to how he sees "the world through bloodshot eyes. Streets filled with blood from distant lies. The dogs of war never compromise," he's not glorifying this evil; he's castigating it. In the last line of the verse "No real time for rearranging" refers to how he's giving up hope. This gives us our first hint to the meaning of the chorus. I'll get back to the chorus later.

In Verse 2, the singer continues his condemnation of the world. When he sings, "Black on black gives me a heart attack," again he's not glorifying but reproving evil.

In the third verse, the singer talks about he's succumbing to the world around him, being "I'm slow and tired," and "falling" to the evil despite his resistance.

In the final verse, the singer sings about having succumbed to the evil, that resistance has turned into a blood bath, and that this resistance in the form of guilt for sins is "fading".

Back to the chorus. The chorus is a summary of the sentiments from the four verses. The singer resists the evil in the world around him ("Help me Jesus"), starts feeling a sense of hopelessness ("He said he cannot heal that kind."), falls to the evil ("Bleeding soul becomes a bitter mind."), and then eventually gives up resistance ("I'm all over you in time my mind is changing.").

I'm not quite sure what to make of the refrain "knock it down". My best guess is that it refers to the singers diminishing/fading resistance.

My Interpretation

Oh, one more thing. I don't think this song is for or against or about religion in any way. His call to Jesus seems to be entirely metaphorical.

Also, here is an excerpt from an interview with Guitar.com. He definitely doesn't sound anti-Christian to me.

"I think the biggest thing nowadays is more moral issues than political issues. I mean, the Bible means a lot more to me than the Constitution and any f----n politics involved in this country or any other country. If somebody falls down on the ground you pick 'em up. You think clearly like that and everything else comes into place."

https://www.guitar.com/articles/interview-pepper-keenan-corrosion-conformity