Resubmitting MP - here are the changes:
Regarding #1:
I have removed Makefile and make.bat from doc and added into cmake builds for html, latex and pdf - checked with Hrvoje and it seems that are the ones we use. Also changed jenkins documentation jobs to reflect new changes.

Regarding #2: Added option -DWITH_MAN_PAGES which is turned on by default. Also new options which are turned off by default are -DWITH_HTML_DOCS, -DWITH_LATEX_DOCS and -DWITH_PDF_DOCS and those are currently used by new jenkins documentation jobs.

Here's some testing:
PXB 2.2:
--------
TEST PACKAGES:
http://jenkins.percona.com/view/Percona-RELEASES/job/percona-xtrabackup-2.2-RELEASE/47/

RPM:
plavi@zoidberg:pxb $ rpm -qlp percona-xtrabackup-2.2.7-5061.el6.x86_64.rpm|grep man
/usr/share/man/man1/innobackupex.1.gz
/usr/share/man/man1/xbcrypt.1.gz
/usr/share/man/man1/xbstream.1.gz
/usr/share/man/man1/xtrabackup.1.gz

DEB:
plavi@zoidberg:pxb $ dpkg -c percona-xtrabackup_2.2.7-5061-1.trusty_amd64.deb|grep man
drwxr-xr-x root/root         0 2015-01-20 17:11 ./usr/share/man/
drwxr-xr-x root/root         0 2015-01-20 17:11 ./usr/share/man/man1/
-rw-r--r-- root/root     24486 2015-01-20 17:11 ./usr/share/man/man1/innobackupex.1.gz
-rw-r--r-- root/root       808 2015-01-20 17:11 ./usr/share/man/man1/xbcrypt.1.gz
-rw-r--r-- root/root     20415 2015-01-20 17:11 ./usr/share/man/man1/xtrabackup.1.gz
-rw-r--r-- root/root      1230 2015-01-20 17:11 ./usr/share/man/man1/xbstream.1.gz

TAR:
plavi@zoidberg:pxb $ tar -ztvf percona-xtrabackup-2.2.7-5061-Linux-x86_64.tar.gz|grep man
drwxr-xr-x root/root         0 2015-01-20 17:09 percona-xtrabackup-2.2.7-Linux-x86_64/man/
drwxr-xr-x root/root         0 2015-01-20 17:09 percona-xtrabackup-2.2.7-Linux-x86_64/man/man1/
-rw-r--r-- root/root     69420 2015-01-20 17:07 percona-xtrabackup-2.2.7-Linux-x86_64/man/man1/xtrabackup.1
-rw-r--r-- root/root      2084 2015-01-20 17:07 percona-xtrabackup-2.2.7-Linux-x86_64/man/man1/xbcrypt.1
-rw-r--r-- root/root     92762 2015-01-20 17:07 percona-xtrabackup-2.2.7-Linux-x86_64/man/man1/innobackupex.1
-rw-r--r-- root/root      2834 2015-01-20 17:07 percona-xtrabackup-2.2.7-Linux-x86_64/man/man1/xbstream.1

JENKINS DOCUMENTATION JOBS:
http://jenkins.percona.com/view/PXB%202.2/job/percona-xtrabackup-2.2-documentation-pdf-new/3/
http://jenkins.percona.com/view/PXB%202.2/job/percona-xtrabackup-2.2-documentation-new/1/


PXB 2.3:
--------
TEST PACKAGES:
http://jenkins.percona.com/view/Percona-RELEASES/job/percona-xtrabackup-2.3-RELEASE/6/

RPM:
plavi@zoidberg:pxb $ rpm -qlp percona-xtrabackup-23-2.3.0-5062.alpha1.el7.x86_64.rpm |grep man
/usr/share/man/man1/innobackupex.1.gz
/usr/share/man/man1/xbcrypt.1.gz
/usr/share/man/man1/xbstream.1.gz
/usr/share/man/man1/xtrabackup.1.gz

DEB:
plavi@zoidberg:pxb $ dpkg -c percona-xtrabackup-23_2.3.0-5062.alpha1-1.trusty_amd64.deb|grep man
drwxr-xr-x root/root         0 2015-01-21 09:23 ./usr/share/man/
drwxr-xr-x root/root         0 2015-01-21 09:23 ./usr/share/man/man1/
-rw-r--r-- root/root     24487 2015-01-21 09:23 ./usr/share/man/man1/innobackupex.1.gz
-rw-r--r-- root/root       811 2015-01-21 09:23 ./usr/share/man/man1/xbcrypt.1.gz
-rw-r--r-- root/root     20415 2015-01-21 09:23 ./usr/share/man/man1/xtrabackup.1.gz
-rw-r--r-- root/root      1232 2015-01-21 09:23 ./usr/share/man/man1/xbstream.1.gz

TAR:
plavi@zoidberg:pxb $ tar -ztvf percona-xtrabackup-2.3.0alpha1-5062-Linux-x86_64.tar.gz|grep man
drwxr-xr-x root/root         0 2015-01-21 09:22 percona-xtrabackup-2.3.0alpha1-Linux-x86_64/man/
drwxr-xr-x root/root         0 2015-01-21 09:22 percona-xtrabackup-2.3.0alpha1-Linux-x86_64/man/man1/
-rw-r--r-- root/root     69420 2015-01-21 09:20 percona-xtrabackup-2.3.0alpha1-Linux-x86_64/man/man1/xtrabackup.1
-rw-r--r-- root/root      2084 2015-01-21 09:20 percona-xtrabackup-2.3.0alpha1-Linux-x86_64/man/man1/xbcrypt.1
-rw-r--r-- root/root     92762 2015-01-21 09:20 percona-xtrabackup-2.3.0alpha1-Linux-x86_64/man/man1/innobackupex.1
-rw-r--r-- root/root      2834 2015-01-21 09:20 percona-xtrabackup-2.3.0alpha1-Linux-x86_64/man/man1/xbstream.1

JENKINS DOCUMENTATION JOBS:
http://jenkins.percona.com/view/PXB%202.3/job/percona-xtrabackup-2.3-documentation-pdf-new/2/
http://jenkins.percona.com/view/PXB%202.3/job/percona-xtrabackup-2.3-documentation-new/1/