diff --git a/LUFA/DoxygenPages/ConfiguringApps.txt b/LUFA/DoxygenPages/ConfiguringApps.txt
index 2b4dbf781a..976927ae01 100644
--- a/LUFA/DoxygenPages/ConfiguringApps.txt
+++ b/LUFA/DoxygenPages/ConfiguringApps.txt
@@ -8,21 +8,20 @@
  *
  *  If the target microcontroller model, architecture, clock speed, board or other settings are different from the current
  *  settings, they must be changed and the project recompiled from the source code before being programmed into the microcontroller.
- *  Most project configuration options are located in the "makefile" build script inside each LUFA application's folder, however
- *  some demo or application-specific configuration settings (such as the output format in the AudioOut demo) are located in one or
- *  more of the source files of the project. See each project's individual documentation for application-specific configuration
- *  values.
+ *  Most project configuration options are located in the <tt>makefile</tt> build script inside each LUFA application's folder,
+ *  however some demo or application-specific configuration settings are located in one or more of the source files of the project.
+ *  See each project's individual documentation for application-specific configuration values.
  *
  *  Each project "makefile" contains all the script and configuration data required to compile each project. When opened with
  *  any regular basic text editor such as Notepad or WordPad (ensure that the save format is a pure ASCII text format) the
  *  build configuration settings may be altered.
  *
+ *  \see \ref Page_BuildSystem for information on the LUFA build system.
+ *
  *  \section Sec_AppConfigParams The Default Application Template
  *
  *  Below is a copy of the default LUFA application makefile, which can be used as a template for each application.
  *
- *  \see \ref Page_BuildSystem for information on the LUFA build system.
- *
  *  \verbinclude makefile_template
  *
  *  Inside each makefile, a number of configuration variables are listed with the syntax "<VARIABLE NAME> = <VALUE>". For
diff --git a/LUFA/DoxygenPages/KnownIssues.txt b/LUFA/DoxygenPages/KnownIssues.txt
index fdefbe2a91..bd7d420a94 100644
--- a/LUFA/DoxygenPages/KnownIssues.txt
+++ b/LUFA/DoxygenPages/KnownIssues.txt
@@ -12,6 +12,16 @@
   *  \section Sec_KnownIssuesXXXXXX Version XXXXXX
   *  - AVR8 Architecture
   *    - No known issues.
+  *  - UC3 Architecture
+  *    \warning The UC3 device support is currently <b>experimental</b> (incomplete and/or non-functional), and is included for preview purposes only. \n
+  *
+  *    - No demos, bootloaders or projects have been ported for the UC3 devices in the current release,
+  *      although the architecture is supported in the LUFA core library.
+  *    - DMA transfers to and from the USB controller are not yet implemented for this release.
+  *    - The UC3C, UC3D and UC3L sub-families of UC3 are not currently supported by the library due to their
+  *      altered USB controller design.
+  *    - The various \c CreateStream() functions for creating standard \c <stdio.h> compatible virtual file
+  *      streams are not available on the UC3 architecture, due to a lack of suitable library support.
   *  - XMEGA Architecture
   *    \warning The XMEGA device support is currently <b>experimental</b> (incomplete and/or non-functional), and is included for preview purposes only.
   *
@@ -23,21 +33,9 @@
   *    - Multiple-bank endpoints are not currently supported in this release.
   *    - Early revisions of the ATXMEGA128A1U are incompatible with LUFA, due to their various errata
   *      relating to the USB controller.
-  *  - UC3 Architecture
-  *    \warning The UC3 device support is currently <b>experimental</b> (incomplete and/or non-functional), and is included for preview purposes only. \n
-  *
-  *    - No demos, bootloaders or projects have been ported for the UC3 devices in the current release,
-  *      although the architecture is supported in the LUFA core library.
-  *    - DMA transfers to and from the USB controller are not yet implemented for this release.
-  *    - The UC3C, UC3D and UC3L sub-families of UC3 are not currently supported by the library due to their
-  *      altered USB controller design.
-  *    - The various \c CreateStream() functions for creating standard \c <stdio.h> compatible virtual file
-  *      streams are not available on the UC3 architecture, due to a lack of suitable library support.
   *  - Architecture Independent
   *    - The HID parser fails for array type elements that have a MIN and MAX usage applied; each element
   *      in the array will receive a unique incrementing usage from the MIN value, up to MAX.
-  *    - The current application makefiles do not work if the output directory is not the same directory
-  *      as the makefile itself.
   *    - The LUFA library is not watchdog aware, and thus timeouts are possible if short periods are used
   *      and a lengthy USB operation is initiated.
   *  - Build System
diff --git a/LUFA/DoxygenPages/ProgrammingApps.txt b/LUFA/DoxygenPages/ProgrammingApps.txt
index c1b2181c84..4759ac87ae 100644
--- a/LUFA/DoxygenPages/ProgrammingApps.txt
+++ b/LUFA/DoxygenPages/ProgrammingApps.txt
@@ -9,8 +9,8 @@
  *  Once you have built an application, you will need a way to program in the resulting ".HEX" file (and, if your
  *  application uses EEPROM variables with initial values, also a ".EEP" file) into your USB AVR. Normally, the
  *  reprogramming of an AVR device must be performed using a special piece of programming hardware, through one of the
- *  supported AVR programming protocols - ISP, HVSP, HVPP, JTAG or dW. This can be done through a custom programmer,
- *  a third party programmer, or an official Atmel AVR tool - for more information, see the Atmel.com website.
+ *  supported AVR programming protocols - ISP, HVSP, HVPP, JTAG, dW or PDI. This can be done through a custom programmer,
+ *  a third party programmer, or an official Atmel AVR tool - for more information, see the <a>atmel.com</a> website.
  *
  *  Alternatively, you can use the bootloader. From the Atmel factory, each USB AVR comes preloaded with the Atmel
  *  DFU (Device Firmware Update) class bootloader, a small piece of AVR firmware which allows the remainder of the
@@ -19,9 +19,12 @@
  *  or broken without an external programming device. They have disadvantages however; they cannot change the fuses of
  *  the AVR (special configuration settings that control the operation of the chip itself) and a small portion of the
  *  AVR's FLASH program memory must be reserved to contain the bootloader firmware, and thus cannot be used by the
- *  loaded application. Atmel's DFU bootloader is either 4KB (for the smaller USB AVRs) or 8KB (for the larger USB AVRs).
+ *  loaded application.
  *
  *  If you wish to use the DFU bootloader to program in your application, refer to your DFU programmer's documentation.
  *  Atmel provides a free utility called FLIP which is USB AVR compatible, and an open source (Linux compatible)
  *  alternative exists called "dfu-programmer".
+ *
+ *  \see \ref Page_BuildModule_DFU for information on the LUFA build system DFU module, for automatic DFU bootloader
+ *  programming makefile targets.
  */