The limit on manual keywords could be higher.  I personally wish we could input 10,000 keywords at a time, instead of 200.  However, I understand the costs that Long Tail Pro has to maintain each time a new manual keyword is input.  Not a deal breaker, I just wish the limit was higher. (To be fair, I don't think most keyword tools have a bulk manual option at all).
To answer your final question, yes but not really. You can definitely use AdWord keyword planner tool to get solid organic search volume estimates. However, don’t just stop there. Leverage other tools to find longer tail variations you can map against various stages of the buyer journey. I like to use SEMrush, Keyword and Google autosuggest.
2) SpyFu: I suggest to have paid account on SpyFu. I just need to find my competitors who using Adwords and review them using this tool. It will show me what ads and keywords they are using. Note that my competitor who paid for that particular keyword knows exactly that it is important for his business including recent trends. Also using SEO feature you can input any URL and find our which keywords they are ranking for.
Let's say you're considering starting a new website, or venturing into a new product niche. And, suppose you'd like to somehow determine how much search buzz is currently hovering around this topic. You can use Keyword Researcher to get a "feel" for how much interest is actually out there. For example, let's say you were selling cameras. Then you might consider the following:
You cannot have a guarantee that you will enhance your ranking and get to the top ten results by making use of the most popular keywords. The situation may worsen when you keep on increasing the amount of content on your website. The only way you can be sure of recording success in your campaigns is by making use of keywords that are not only creative but also relevant. This is the main reason why we have the AdWords and SEO keyword permutation generator tool. The interface of this tool is very easy to use and has three boxes for text entry and you will be required to fill in as many keywords and you like and the generator will work out several permutations that produce very creative and useful keywords that you can include in your content. However, you will be expected to keenly watch the keyword generator because some of them may not make sense.
When you’re running the Rank Checker feature sometimes you see Google’s captchas pop up and which can be annoying. I have only experienced this on a computer with an old OS (Windows XP) though; I haven’t seen this on Windows 7 or Windows 10 machines. Again, if you close the software and reopen it after a few minutes, everything will be okay again. UPDATE: one of the latest updates fixed this issue.
3. Ninja Outreach: Full disclosure this is my own tool, and it is actually an outreach tool, so you may be wondering how it plays into Keyword Research. The fact is there are quite a few data points that NinjaOutreach gets for me that I find useful in keyword research, such as the articles that are ranking for the keyword in Google, their domain authority, their page authority, the number of backlinks they have, and other social and contact data. It's pretty valuable stuff, especially if there is going to be an outreach campaign tied into the keyword research. I wrote a great article with Jake from LTP showing the combination of the two tools.
It would be great if you can provide comparative analysis of this tool with Google Keyword Planner. Since you’re using this tool so you can provide best comparison. One differentiation which I understood is that this tool works for yahoo and bing as well whereas Google keyword planner works only for Google but Google being a dominating search engine, gives the highest returns, so only this reason may not be enough to buy it.