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Which of the following sentences is correct?
1: Yes, there is some technical problem with the new messy look of EnglishForward.
2: Yes, there is some technical problem with the messy new look of EnglishForward.
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I would go with the second. The "new look is messy" rather than the "messy look is new". Matter of style, I think.
Comments  
If you ask me, I would go with the first. The general pattern is that an adverb comes in front of an adjective, therefore the expression ''new (adverb) messy (adjective)'' is preferred.