diff --git a/Tools/Source/TianoTools/CompressDll/CompressDll.c b/Tools/Source/TianoTools/CompressDll/CompressDll.c
index 3c6fc8cb4d..cc06f26c05 100644
--- a/Tools/Source/TianoTools/CompressDll/CompressDll.c
+++ b/Tools/Source/TianoTools/CompressDll/CompressDll.c
@@ -11,6 +11,9 @@
   WITHOUT WARRANTIES OR REPRESENTATIONS OF ANY KIND, EITHER EXPRESS OR IMPLIED.
 
 **/
+#if defined(__GNUC__)
+typedef long long __int64;/*For cygwin build*/
+#endif
 #include "CompressDll.h"
 #include "EfiCompress.h"
 
diff --git a/Tools/Source/TianoTools/CompressDll/CompressDll.h b/Tools/Source/TianoTools/CompressDll/CompressDll.h
index 3b0fbb2cee..fa3b83cd10 100644
--- a/Tools/Source/TianoTools/CompressDll/CompressDll.h
+++ b/Tools/Source/TianoTools/CompressDll/CompressDll.h
@@ -1,4 +1,5 @@
 /* DO NOT EDIT THIS FILE - it is machine generated */
+
 #include <jni.h>
 /* Header for class org_tianocore_frameworktasks_Compress */
 
diff --git a/Tools/Source/TianoTools/CompressDll/build.xml b/Tools/Source/TianoTools/CompressDll/build.xml
index ff80a6c4ed..1aa5fb6ac8 100644
--- a/Tools/Source/TianoTools/CompressDll/build.xml
+++ b/Tools/Source/TianoTools/CompressDll/build.xml
@@ -1,4 +1,4 @@
-<?xml version="1.0" encoding="UTF-8"?>
+<?xml version="1.0" encoding="UTF-8"?>
 <!--
 Copyright (c) 2006, Intel Corporation
 All rights reserved. This program and the accompanying materials
@@ -49,10 +49,13 @@ WITHOUT WARRANTIES OR REPRESENTATIONS OF ANY KIND, EITHER EXPRESS OR IMPLIED.
       <includepath path="${PACKAGE_DIR}/Include/${HostArch}"/>
       <includepath path="${PACKAGE_DIR}/Common"/>
       <includepath path="${env.JAVA_HOME}/include"/>
-      <includepath path="${env.JAVA_HOME}/include/linux" if="cyglinux"/>
+      <includepath path="${env.JAVA_HOME}/include/linux" if="gcc"/>
+      <includepath path="${env.JAVA_HOME}/include/win32" if="cygwin"/>
       <includepath path="${env.JAVA_HOME}/include/win32" if="msft"/>
       <libset dir="${LIB_DIR}" libs="CommonTools"/>
       <syslibset libs="kernel32" if="msft"/>
+      <linkerarg value="-mno-cygwin" if="cygwin"/>
+      <linkerarg value="--add-stdcall-alias" if="cygwin"/>
     </cc>
     <copy file="${result}" tofile="${BIN_DIR}/CompressDll.dll"/>
     <chmod file="${BIN_DIR}/CompressDll.dll" perm="ugo+x"/>
diff --git a/Tools/Source/TianoTools/Pccts/antlr/makefile.cygwin b/Tools/Source/TianoTools/Pccts/antlr/makefile.cygwin
index cc590e47e5..956de0be07 100644
--- a/Tools/Source/TianoTools/Pccts/antlr/makefile.cygwin
+++ b/Tools/Source/TianoTools/Pccts/antlr/makefile.cygwin
@@ -167,7 +167,7 @@ PCCTS_H=../h
 BIN_DIR=../../../../bin
 CC=gcc
 COPT=-O
-ANTLR=${BIN_DIR}/antlr.exe
+ANTLR=$(BIN_DIR)/antlr.exe
 DLG=${BIN_DIR}/dlg.exe
 OBJ_EXT=o
 OUT_OBJ = -o
@@ -180,7 +180,7 @@ OBJ=antlr.o scan.o err.o bits.o build.o fset2.o fset.o gen.o  \
         globals.o hash.o lex.o main.o misc.o set.o pred.o egman.o mrhoist.o fcache.o
 
 antlr : $(OBJ) $(SRC)
-		$(CC) $(CFLAGS) -o ${BIN_DIR}/antlr.exe $(OBJ)
+		$(CC) $(CFLAGS) -o $(BIN_DIR)/antlr.exe $(OBJ)
 
 # what files does PCCTS generate (both ANTLR and DLG)
 PCCTS_GEN=antlr.c scan.c err.c tokens.h mode.h parser.dlg stdpccts.h remap.h
diff --git a/Tools/Source/TianoTools/Pccts/dlg/makefile.cygwin b/Tools/Source/TianoTools/Pccts/dlg/makefile.cygwin
index 02e4c8994a..bbba820d13 100644
--- a/Tools/Source/TianoTools/Pccts/dlg/makefile.cygwin
+++ b/Tools/Source/TianoTools/Pccts/dlg/makefile.cygwin
@@ -117,7 +117,7 @@ PCCTS_H=../h
 BIN_DIR=../../../../bin
 CC=cc
 COPT=-O
-ANTLR=${BIN_DIR}/antlr.exe
+ANTLR=$(BIN_DIR)/antlr.exe
 DLG=${BIN_DIR}/dlg.exe
 CFLAGS= $(COPT) -I. -I$(SET) -I$(PCCTS_H) -DUSER_ZZSYN -DZZLEXBUFSIZE=65536
 OBJ_EXT=o
@@ -126,7 +126,7 @@ OBJ = dlg_p.o dlg_a.o main.o err.o set.o support.o output.o \
         relabel.o automata.o
 
 dlg : $(OBJ) $(SRC)
-		$(CC) $(CFLAGS) -o ${BIN_DIR}/dlg.exe $(OBJ)
+		$(CC) $(CFLAGS) -o $(BIN_DIR)/dlg.exe $(OBJ)
 
 SRC = dlg_p.c dlg_a.c main.c err.c $(SET)/set.c support.c output.c \
         relabel.c automata.c
diff --git a/Tools/Source/TianoTools/build.xml b/Tools/Source/TianoTools/build.xml
index d304f0a014..d172292809 100644
--- a/Tools/Source/TianoTools/build.xml
+++ b/Tools/Source/TianoTools/build.xml
@@ -158,7 +158,7 @@ WITHOUT WARRANTIES OR REPRESENTATIONS OF ANY KIND, EITHER EXPRESS OR IMPLIED.
 
     <condition property="cyglinux">
       <or>
-        <istrue value="linux"/>
+        <istrue value="${linux}"/>
         <istrue value="${cygwin}"/>
       </or>
     </condition>
diff --git a/edksetup.sh b/edksetup.sh
index 08e62bc877..7a3fe33a8f 100644
--- a/edksetup.sh
+++ b/edksetup.sh
@@ -28,10 +28,22 @@ if [ "$XMLBEANS_HOME" == "" ]
 then
   echo "Please set XMLBEANS_HOME before sourcing this script."
 else
+  
+case "`uname`" in
+  CYGWIN*) 
+    # Convert paths to unix format.
+    # This is to remove possible wrong path when converting CLASSPATH back to windows format
+    export WORKSPACE=`cygpath -u $WORKSPACE`
+    export ANT_HOME=`cygpath -u $ANT_HOME`
+    export XMLBEANS_HOME=`cygpath -u $XMLBEANS_HOME`
+    export FRAMEWORK_TOOLS_PATH=`cygpath -u $FRAMEWORK_TOOLS_PATH`
+    ;;
+esac
 
 # These should be ok as they are.
 export CLASSPATH=$WORKSPACE/Tools/Jars/SurfaceArea.jar:$WORKSPACE/Tools/Jars/frameworktasks.jar:$WORKSPACE/Tools/Jars/cpptasks.jar:$WORKSPACE/Tools/Jars/PcdTools.jar:$WORKSPACE/Tools/Jars/GenBuild.jar:$XMLBEANS_HOME/lib/resolver.jar:$XMLBEANS_HOME/lib/xbean.jar:$XMLBEANS_HOME/lib/xmlpublic.jar:$XMLBEANS_HOME/lib/jsr173_1.0_api.jar:$XMLBEANS_HOME/lib/saxon8.jar:$XMLBEANS_HOME/lib/xbean_xpath.jar
 export CLASSPATH=$CLASSPATH:$WORKSPACE/Tools/Jars/Common.jar
+export CLASSPATH=$CLASSPATH:$WORKSPACE/Tools/Jars/PcdTools.jar
 export CLASSPATH=$CLASSPATH:$WORKSPACE/Tools/Bin/FrameworkWizard.jar
 export FRAMEWORK_TOOLS_PATH=$WORKSPACE/Tools/bin
 export PATH=$FRAMEWORK_TOOLS_PATH:$ANT_HOME/bin:$JAVA_HOME/bin:$PATH
@@ -45,6 +57,8 @@ case "`uname`" in
   CYGWIN*) 
     # Convert paths to windows format.
     export WORKSPACE=`cygpath -w $WORKSPACE`
+    export ANT_HOME=`cygpath -w -p $ANT_HOME`
+    export XMLBEANS_HOME=`cygpath -w -p $XMLBEANS_HOME`
     export CLASSPATH=`cygpath -w -p $CLASSPATH`
     export FRAMEWORK_TOOLS_PATH=`cygpath -w -p $FRAMEWORK_TOOLS_PATH`
     ;;