1) Database password encryption
2) Custom version control using database. It should allow automatic code backup
3) Add code coverage to test results
4) Create deployment script for deploying the application
5) Read about xdebug remote debugging with breakpoints
6) Rename businessobjectframework to objectframework
7) Create a application template generator script that creates the right application template depending on user input
8) Create tools to extract important business logic functions
9) Use a design pattern to separate the user interface from the data. e.g data can be used in text and graphical user interfaces
10) Use one render function per layout
11) Create a tools framework that provides gui and command line tools. user should be able to use the tools from the applications tools page. e.g tools for deploying application, testing application (clear database and test data, run functional tests, run unit tests), edit class diagram, edit database diagram, edit business rules, create new application from template, edit templates, create new templates, simple database editor, workflow task list depending on selected work, simple task editor, mantis bugtracker integration (e.g total number of hours)
12) Update code so it conforms to psr standards including auto loading standard and logging standard
13) Create simple template function for displaying html output. e.g for logging function output
14) Add qunit test runner
15) Use http://adrai.github.io/flowchart.js/ to create flowcharts from functions
16) Add annotation tags to function comments for indicating business rule
17) Make script for reading functions and classes. it should allow version control at the level of functions and classes. it should also allow editing functions for certain business rules
18) Create tool for online code file editing. Connect error messages to code file
19) Classes for generating test data automatically
20) Tools class for transforming data so it provides multiple views
21) Write articles describing following: how to create a wordpress plugin, how to unit test and functional test your application, how to write a sample web application, how to write a script, how to display html tables, how to use etl class, how to use user interface objects, data objects and data object abstraction, how to use session, api and http authentication
22) Write a script for version control. it should allow linking each item in the changelog to a file and function. it should also generate a git commit statement for each changed file
23) Create an API class that derives from the base Application class. it should provide methods for validating function input and returning function output in correct format. add xmlrpc function to API class
24) Add option to testing class for unit testing single function
25) Look into possibility of hosting all the code in database
26) Add admin page that lists the database queries of application
27) Create admin page for managing projects and tasks
28) Create admin page for managing goals
29) Create admin page for learnings. It should allow user to include reminders
30) Send reminder notifications if some goal is not being met

Reference:

1) http://html5demos.com/dnd-upload
2) http://php.net/manual/en/language.oop5.inheritance.php
3) http://php.net/manual/en/function.spl-autoload-register.php
4) http://phpdoc.org/docs/latest/getting-started/your-first-set-of-documentation.html
5) http://www.w3schools.com/html/html_form_input_types.asp
6) http://www.w3schools.com/html/html5_syntax.asp
7) http://php.net/manual/en/functions.variable-functions.php
8) http://php.net/manual/en/curl.examples.php
9) https://github.com/validator/validator/wiki/Service:-Input:-POST-body
10) http://php.net/manual/en/function.get-class.php
11) http://php.net/manual/en/function.get-class-methods.php
12) http://www.dropzonejs.com/
13) https://phpexcel.codeplex.com/
14) https://github.com/PHPOffice/PHPExcel/blob/develop/Documentation/markdown/Overview/07-Accessing-Cells.md
15) http://stackoverflow.com/questions/6048913/in-html5-with-respect-to-tables-what-replaces-cellpadding-cellspacing-valign
16) http://www.w3schools.com/tags/tag_datalist.asp
17) http://php.net/manual/en/language.oop5.interfaces.php
18) http://php.net/manual/en/language.oop5.abstract.php
19) http://php.net/manual/en/language.oop5.iterations.php
20) http://php.net/manual/en/function.register-shutdown-function.php
21) http://php.net/manual/en/language.oop5.late-static-bindings.php
22) http://php.net/manual/en/mysqli.autocommit.php
23) http://php.net/manual/en/mysqli.commit.php
24) http://php.net/manual/en/mysqli.rollback.php
25) http://www.phptherightway.com/pages/Design-Patterns.html
26) http://www.w3schools.com/js/js_errors.asp
27) http://www.w3schools.com/jsref/met_loc_reload.asp
28) http://php.net/manual/en/function.get-class-methods.php
29) http://php.net/manual/en/language.namespaces.importing.php
30) http://stackoverflow.com/questions/4165195/mysql-query-to-get-column-names
31) http://php.net/manual/en/function.array-replace-recursive.php
32) http://php.net/manual/en/function.class-exists.php
33) http://php.net/manual/en/language.types.callable.php
34) https://en.wikipedia.org/wiki/Business_logic
35) https://en.wikipedia.org/wiki/Business_rule_management_system
36) https://en.wikipedia.org/wiki/User_interface_management_systems
37) http://www.phptherightway.com/pages/Design-Patterns.html
38) http://www.phptherightway.com/#components
39) http://php.net/manual/en/function.filter-var.php
40) http://php.net/security.globals
41) http://www.fluffycat.com/PHP-Design-Patterns/Abstract-Factory/
42) http://php.net/manual/en/features.http-auth.php
43) http://php.net/manual/en/function.call-user-func-array.php
44) http://php.net/manual/en/function.is-callable.php
45) http://php.net/manual/en/features.commandline.php
46) http://xdebug.org/docs/
47) http://www.php-fig.org/
48) http://beta.phpformatter.com/
49) https://help.github.com/articles/adding-a-file-to-a-repository-from-the-command-line/
50) https://en.wikipedia.org/wiki/Web_application_framework
51) http://php.net/manual/en/function.getopt.php
52) http://php.net/manual/en/language.oop5.references.php
53) http://php.net/manual/en/keyword.parent.php
54) http://php.net/manual/en/language.oop5.constants.php
55) http://ruwix.com/simple-javascript-html-css-slider-progress-bar/
56) http://php.net/manual/en/reflectionclass.getdoccomment.php
57) http://www.slideshare.net/rdohms/annotations-in-php-they-exist
58) http://php.net/manual/en/functions.arguments.php
59) http://php.net/manual/en/class.closure.php
60) http://php.net/manual/en/simplexmlelement.registerxpathnamespace.php
61) http://php.net/manual/en/function.mb-detect-encoding.php
62) http://php.net/manual/en/book.xmlwriter.php
63) https://support.jwplayer.com/customer/en/portal/articles/1406722-rss-playlist-embed
64) https://en.wikipedia.org/wiki/XMLHttpRequest
65) http://php.net/manual/en/migration70.php

Concepts used:

1) late static binding
2) front controller pattern
3) dont repeat your self
4) Abstract factory pattern
5) push and pull based template generation
6) wordpress plugin development component
7) support for unit and functional testing
8) data source abstraction
9) dependency inversion
10) dependency injection
11) support for writing etl scripts
12) preventing session hijacking using session_regenerate_id