Running Slow When Viewing Events and Transcoding (and gets hot!)

Hello community,
Before you read, please read my specs down below to rule that out.
So I'm running FCPX version 10.1.1. I just imported a lot of video (almost 1TB). All of it is in 1080p. I did not copy anything in and left it in its original folders. So I am having two problems:
1. I wanted to transcode all of the video to work better with FCPX. Part of the original media is ProRes 422, but part of it was AVCHD. So after converting the AVCHD to Quicktime (.MOV) files, I went to transcode all of the footage to optimized media during import, but it was painfully slow. It would take 15 minutes to transcode a 10 second clip. My computer would also get very hot during this process (90*C). After multiple attempts, I decided to forgo that and just transcode when I export. If anyone has an answer as to why that is, that would be great.
Now problem #2.
2. I am just viewing the media in the events browser to put keywords on the videos. All I am doing is viewing the videos. I have not even created a project or anything. When I'm viewing it, a lot of the clips won't load or play back, and my computer gets really hot (90*C). I can't even scrub over the videos in the event browser because they will be blacked out or blank and won't load. And this fluctuates. Sometimes I will be able to view the media, sometimes I won't and it'll get really hot. It is really slowing down my workflow and it would be great if anyone had an answer. I have reset the PRAM and the SMC and neither of those have worked.
Thank you!
System Specifications:
Mavericks OSX 10.9.3
Macbook Pro Retina, 15-inch, Late 2013
16 GB of Ram
Intel i7 Quad Core - 2.6 GHz
Intel Iris Pro with Nvidia GeForce GT 750M
500 GB SSD - 202.44 Free
Secondary Drive (with all of my video files):
WD My Passport Ultra HD 2TB - 1.1TB Free

Your setup should be more than capable of handling that workload.
There are a few things you did not mention.
How is the drive connected?
The most likely explanation for the slowness would be a slow drive. If the drive is only USB2, that would be a bottleneck.
You can easily test that by running Blackmagic Disk Speed Test. I do this with every drive to see what performance I can expect.
You mentioned converting AVCHD to mov. You should know you really don't need this. FCP X can import these files directly. It is best to keep the whole AVCHD structure by copying the whole folder or, better yet, use FCP X to create a camera archive. These will be used just as a camera card would, except much faster to import from, being in a hard drive instead of an actual SD card.
My suspicion is on whichever software you are using to do this conversion. There are a number of low quality converters out there, and if these files have problems they can easily cause FCP X to sweat (pun intended).

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