This is not a solution to the puzzle, but provides details about the OP's thoughts. This type of puzzles has been approved by the community
Caution - This answer may contain spoilers
I have always been thrilled by the tag anagram. It usually brings out many funny things from seemingly simple words and phrases. I had always wanted to create a puzzle from anagrams of famous personalities. I had tried one earlier but I wasn't really happy with it. I wanted to use anagrams of scientists because I have been fascinated by their works.
Anagrams tend to be easily noticed by experienced puzzlers. So, I decided to make it a bit obscured with a story so that the puzzler gets a bit distracted. And precisely for this reason, I avoided the "anagram" tag on the puzzle so that the puzzler doesn't get through it too easily.
Steps Of Creation
I was clear on what I wanted with this puzzle. Next, I tried for anagrams of famous scientists. I had come up with Edison and Faraday on my own. And after a little bit of browsing, i got myself three more. I wanted more, but everything else that I got would have been a giveaway.
So, armed with anagrams, I decided to frame a nice story which would serve as a distraction for the puzzler and my puzzle would last more than 24 hours.
Initially, I had thought of framing a story of X talking to Y and put these phrases in the conversation. However, I quickly saw that this phrases and lines would be suspicious and an experienced puzzler(There are many such people here!) would quickly see through it.
I then, changed the story into me talking with someone. I also decided that it would be better if a young guy/girl talked to me about it as ions and atoms are usually taught in middle school. Thus, my younger sister was born.
I then decided to cryptically refer to anagrams in the blockquotes so that the puzzler wouldn't complain about obscure stuff in the puzzle. I chose the cryptic clue of "confused" for two reasons- First, I couldn't possibly directly write about anagrams and had to clue them in somehow. And two, the word "confused" fitted nicely in the story and didn't attract much attention to it until I provided the last hint. I also chose scientists mainly because they are proper nouns and the Internet Anagram Server wouldn't dish out the names directly.
I used google for a bit of browsing through different anagrams of famous personalities. Once, I got the ones that I required, (along with the ones that I had prepared) my puzzle was almost complete.
I was a tad happy that my puzzle lasted more than 24 hours(which is quite an achievement for me!). This has been my favourite puzzle that I have posted here. I hope that this puzzle has done justice to the anagram tag. The puzzle has also reinforced my belief that this community can solve just about any problem.